Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_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: 10629029
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 51
Found at i:3369086 original size:20 final size:17
Alignment explanation
Indices: 3369037--3369081 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
3369027 TCTGAAGAAG
* *
3369037 GAGAAGAAATCCATAAT
1 GAGAAGAATTTCATAAT
3369054 GAGAAGAATTTCATAAT
1 GAGAAGAATTTCATAAT
3369071 GAGAAGAATTT
1 GAGAAGAATTT
3369082 GTTCAACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.49, C:0.07, G:0.20, T:0.24
Consensus pattern (17 bp):
GAGAAGAATTTCATAAT
Found at i:3369326 original size:3 final size:3
Alignment explanation
Indices: 3369312--3369412 Score: 71
Period size: 3 Copynumber: 34.0 Consensus size: 3
3369302 TTGGCCCGTT
* * * * * * * *
3369312 TTA TTT TTA TTA TTA TTA TAA TTA TTA TAA TTG TTA TAA TAA TAA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
3369360 TAA TAA TTA TTA TTA TTA TTA -TA TT- TTA TTA TTA TTAA TAA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
3369404 TTA TTA TTA
1 TTA TTA TTA
3369413 CATATTACAT
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
2 4 0.05
3 75 0.93
4 2 0.02
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:3369390 original size:19 final size:19
Alignment explanation
Indices: 3369365--3369412 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
3369355 AATAATAATA
* *
3369365 ATTATTATTATTATTATAT
1 ATTATTATTATTAATAAAT
*
3369384 TTTATTATTATTAATAAAT
1 ATTATTATTATTAATAAAT
3369403 ATTATTATTA
1 ATTATTATTA
3369413 CATATTACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTATTATTATTAATAAAT
Found at i:3370801 original size:8 final size:8
Alignment explanation
Indices: 3370737--3370799 Score: 56
Period size: 8 Copynumber: 7.8 Consensus size: 8
3370727 TATAGTTTGA
3370737 ATTTTAATT
1 ATTTTAA-T
*
3370746 ATTTTAGT
1 ATTTTAAT
**
3370754 ATTAAAAT
1 ATTTTAAT
3370762 ATTTTAAT
1 ATTTTAAT
3370770 ATGTTTAAT
1 AT-TTTAAT
3370779 ATTTTAAT
1 ATTTTAAT
* *
3370787 -TATTATT
1 ATTTTAAT
3370794 ATTTTA
1 ATTTTA
3370800 TTTTTATTAA
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
7 5 0.12
8 24 0.56
9 14 0.33
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (8 bp):
ATTTTAAT
Found at i:3370808 original size:14 final size:15
Alignment explanation
Indices: 3370761--3370808 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
3370751 AGTATTAAAA
*
3370761 TATTTTAATATGTTTAA
1 TATTTTAAT-T-TTTAT
*
3370778 TATTTTAATTATTAT
1 TATTTTAATTTTTAT
3370793 TATTTT-ATTTTTAT
1 TATTTTAATTTTTAT
3370807 TA
1 TA
3370809 ATATATACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 9 0.32
15 9 0.32
16 1 0.04
17 9 0.32
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTTTAATTTTTAT
Found at i:3371224 original size:25 final size:23
Alignment explanation
Indices: 3371179--3371224 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
3371169 CATTTTCTGA
*
3371179 TATTTATAAATAAATATATATCT
1 TATTTATAAATAAATAAATATCT
3371202 TATTTATAAAAATAAATAAATAT
1 TATTTAT--AAATAAATAAATAT
3371225 ATATATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
25 13 0.65
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TATTTATAAATAAATAAATATCT
Found at i:3371228 original size:2 final size:2
Alignment explanation
Indices: 3371221--3371258 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
3371211 AAATAAATAA
3371221 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3371259 TTTCTTATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3374490 original size:36 final size:34
Alignment explanation
Indices: 3374440--3374582 Score: 151
Period size: 36 Copynumber: 4.0 Consensus size: 34
3374430 AAAAGATGAA
*
3374440 CACTTGAATCGAAAGTGATGATGCCTCCTTCCGTT
1 CACTTGAATCGAAAGTG-TGATGCTTCCTTCCGTT
* * * *
3374475 CAATTTGAATCGAAAGTGCCGATGTTTCCTTCCATT
1 C-ACTTGAATCGAAAGTG-TGATGCTTCCTTCCGTT
*
3374511 CGACTTGAATCGAAAGTGTCGATACTTCCTTCCGTT
1 C-ACTTGAATCGAAAGTGT-GATGCTTCCTTCCGTT
* * *
3374547 CACTTGAATCAAAAGTGTTGATGTTTCCTTTCGTT
1 CACTTGAATCGAAAGTG-TGATGCTTCCTTCCGTT
3374582 C
1 C
3374583 TTCTTGTTCA
Statistics
Matches: 89, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
35 30 0.34
36 59 0.66
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (34 bp):
CACTTGAATCGAAAGTGTGATGCTTCCTTCCGTT
Found at i:3377286 original size:54 final size:55
Alignment explanation
Indices: 3377195--3377307 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 55
3377185 AACAAGTCGG
* * * *
3377195 GCAACAAATTTTCTTAACAAGCACGAGTCGAGCAAAATTTTAACGAGTTTAACGA
1 GCAACAAATTTTCTTAACAAGCACAAATCAAGCAAAATTTTAACGAGCTTAACGA
*
3377250 GCAACAAATTTT-TTAACTAA-CACAAATCAAGCAAAATTTTAATGAGCTTAACGA
1 GCAACAAATTTTCTTAAC-AAGCACAAATCAAGCAAAATTTTAACGAGCTTAACGA
3377304 GCAA
1 GCAA
3377308 TGAGTCAAGC
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 38 0.73
55 14 0.27
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (55 bp):
GCAACAAATTTTCTTAACAAGCACAAATCAAGCAAAATTTTAACGAGCTTAACGA
Found at i:3377520 original size:58 final size:58
Alignment explanation
Indices: 3377455--3377569 Score: 194
Period size: 58 Copynumber: 2.0 Consensus size: 58
3377445 ATAATTTTTA
* *
3377455 AACGGAATCAAAGTAGTAGGTCAAAAGGTTTTACATGTCCAAATAATATCAACTAATT
1 AACGGAATCAAAGTAGCAGGTCAAAAGGTTTTACATGACCAAATAATATCAACTAATT
* *
3377513 AACGGAATCAAAGTGGCAGGTCAAAAGGTTTTACGTGACCAAATAATATCAACTAAT
1 AACGGAATCAAAGTAGCAGGTCAAAAGGTTTTACATGACCAAATAATATCAACTAAT
3377570 CATCAAAATG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (58 bp):
AACGGAATCAAAGTAGCAGGTCAAAAGGTTTTACATGACCAAATAATATCAACTAATT
Found at i:3378464 original size:37 final size:37
Alignment explanation
Indices: 3378372--3378577 Score: 143
Period size: 37 Copynumber: 5.7 Consensus size: 37
3378362 AAATCTTGAA
* * **
3378372 AATAAATAG-TTTTGAAAACATGTTTGAAAACATTTATAT
1 AATATATAGTTTTTAAAAACAT-TTTG-AAA-ATAAATAT
*
3378411 ATTATATAGTTTTTTTAAAAACATTTTGAAAATAAATAT
1 AATATATAG--TTTTTAAAAACATTTTGAAAATAAATAT
*
3378450 AATATATAGTTTTT-AAAACATTTTTGAAAATATATAT
1 AATATATAGTTTTTAAAAACA-TTTTGAAAATAAATAT
*
3378487 TATATATA-TTTTT-AAAACATTTTG------AA-A-
1 AATATATAGTTTTTAAAAACATTTTGAAAATAAATAT
*
3378514 AATATATAGTTTTTAAAAACATTTTG-AAA-ACATAT
1 AATATATAGTTTTTAAAAACATTTTGAAAATAAATAT
*
3378549 AAGTTATATAGTTTTAAGAAAAACATTTT
1 AA--TATATAGTTTT--TAAAAACATTTT
3378578 TTAAAACTAT
Statistics
Matches: 139, Mismatches: 12, Indels: 32
0.76 0.07 0.17
Matches are distributed among these distances:
27 7 0.05
28 6 0.04
29 12 0.09
33 1 0.01
34 1 0.01
35 7 0.05
36 17 0.12
37 38 0.27
39 32 0.23
40 3 0.02
41 4 0.03
42 11 0.08
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (37 bp):
AATATATAGTTTTTAAAAACATTTTGAAAATAAATAT
Found at i:3378499 original size:36 final size:35
Alignment explanation
Indices: 3378406--3378521 Score: 160
Period size: 37 Copynumber: 3.2 Consensus size: 35
3378396 TGAAAACATT
*
3378406 TATATATTATATAGTTTTTTTAAAAACATTTTGAAAA
1 TATATATTATATA-TATTTTT-AAAACATTTTGAAAA
* *
3378443 TAAATATAATATATAGTTTTTAAAACATTTTTGAAAA
1 TATATATTATATATA-TTTTTAAAACA-TTTTGAAAA
3378480 TATATATTATATATATTTTTAAAACATTTTGAAAAA
1 TATATATTATATATATTTTTAAAACATTTTG-AAAA
3378516 TATATA
1 TATATA
3378522 GTTTTTAAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
35 5 0.07
36 28 0.39
37 38 0.54
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (35 bp):
TATATATTATATATATTTTTAAAACATTTTGAAAA
Found at i:3378527 original size:64 final size:65
Alignment explanation
Indices: 3378450--3378658 Score: 199
Period size: 69 Copynumber: 3.1 Consensus size: 65
3378440 AAATAAATAT
*
3378450 AATATATAGTTTTTAAAACATTTTTGAAAATATATATTATATATATTTTTAAAACA-TTTTGAAA
1 AATATATAGTTTTTAAAACATTTTTGAAAAAATATATTATATATATTTTTAAAACACTTTTGAAA
* ** *
3378514 AATATATAGTTTTTAAAAACA-TTTTGAAAACATATAAGTTATATAGT-TTTAAGAAAAACATTT
1 AATATATAGTTTTT-AAAACATTTTTGAAAAAATAT-A-TTATATA-TATTT--TTAAAACACTT
*
3378577 TTTAAA
60 TTGAAA
* * * * * * *
3378583 ACTATATAATTTTGAAAACATTTTTAATAAAAATTATAATATATATAATTTTAAAATACTTTTGA
1 AATATATAGTTTTTAAAACATTTTTGA-AAAAA-TATATTATATATATTTTTAAAACACTTTTGA
3378648 AA
64 AA
3378650 ATATATATA
1 A-ATATATA
3378659 TAGATTTTTG
Statistics
Matches: 116, Mismatches: 17, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
64 27 0.23
65 7 0.06
66 10 0.09
67 14 0.12
68 19 0.16
69 31 0.27
70 5 0.04
71 3 0.03
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.44
Consensus pattern (65 bp):
AATATATAGTTTTTAAAACATTTTTGAAAAAATATATTATATATATTTTTAAAACACTTTTGAAA
Found at i:3378532 original size:29 final size:29
Alignment explanation
Indices: 3378488--3378553 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 29
3378478 AATATATATT
3378488 ATATATA-TTTTTAAAACATTTTGAAAA-
1 ATATATAGTTTTTAAAACATTTTGAAAAC
3378515 ATATATAGTTTTTAAAAACATTTTGAAAAC
1 ATATATAGTTTTT-AAAACATTTTGAAAAC
3378545 ATATA-AGTT
1 ATATATAGTT
3378554 ATATAGTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
27 7 0.19
28 5 0.14
29 19 0.53
30 5 0.14
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (29 bp):
ATATATAGTTTTTAAAACATTTTGAAAAC
Found at i:3378571 original size:39 final size:39
Alignment explanation
Indices: 3378516--3378591 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 39
3378506 TTTTGAAAAA
*
3378516 TATATAGTTTTTAAAAACA-TTTTGAAAAC-ATATAAGT
1 TATATAGTTTTGAAAAACATTTTTGAAAACTATATAAGT
*
3378553 TATATAGTTTTAAGAAAAACATTTTTTAAAACTATATAA
1 TATATAGTTTT--GAAAAACATTTTTGAAAACTATATAA
3378592 TTTTGAAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 11 0.33
39 7 0.21
40 9 0.27
41 6 0.18
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (39 bp):
TATATAGTTTTGAAAAACATTTTTGAAAACTATATAAGT
Found at i:3378674 original size:35 final size:31
Alignment explanation
Indices: 3378621--3378694 Score: 78
Period size: 35 Copynumber: 2.3 Consensus size: 31
3378611 AAAAATTATA
*
3378621 ATATATATAATTTTAAAATACTTTTGA-AAAT
1 ATATATATAATTTTAAAATAATTTT-ATAAAT
*
3378652 ATATATATAGATTTTTGGAAAATAATTTTATATAT
1 ATATATATA-A-TTTT--AAAATAATTTTATAAAT
3378687 ATATATAT
1 ATATATAT
3378695 TTTTATTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
31 9 0.25
32 1 0.03
33 4 0.11
34 1 0.03
35 21 0.58
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.47
Consensus pattern (31 bp):
ATATATATAATTTTAAAATAATTTTATAAAT
Found at i:3378718 original size:13 final size:13
Alignment explanation
Indices: 3378694--3378751 Score: 66
Period size: 13 Copynumber: 4.5 Consensus size: 13
3378684 TATATATATA
3378694 TTTTTA-TTT-AT
1 TTTTTATTTTCAT
*
3378705 TTTTTATTTTTAT
1 TTTTTATTTTCAT
*
3378718 TATTATTAATTTCAT
1 T-TT-TTATTTTCAT
3378733 TTTTTATTTTCAT
1 TTTTTATTTTCAT
3378746 TTTTTA
1 TTTTTA
3378752 GGGGTCCAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
11 6 0.15
12 3 0.08
13 18 0.45
14 4 0.10
15 9 0.22
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTATTTTCAT
Found at i:3383718 original size:94 final size:93
Alignment explanation
Indices: 3383551--3383733 Score: 296
Period size: 94 Copynumber: 2.0 Consensus size: 93
3383541 TATAATATTA
*
3383551 TATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCTGGCTTTATGGA
1 TATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGA
* *
3383616 TAATATTCAGCTAGCCTGATAAAGTAAT
66 TAAGATTCAGCTAACCTGATAAAGTAAT
*
3383644 TATACTATACAATAAAGCTTGAGTTGTCCCTCTA-AGGCAATTGGTTAAACTCCCCGGCTTTATG
1 TATA-TATACAATAAAGCTTGAGTTGTCCCTCTAGA-GCAATTGGTTAAACGCCCCGGCTTTATG
*
3383708 GATAAGATTCAGCTAACTTGATAAAG
64 GATAAGATTCAGCTAACCTGATAAAG
3383734 GTGTTTATGT
Statistics
Matches: 83, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
93 5 0.06
94 78 0.94
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (93 bp):
TATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGA
TAAGATTCAGCTAACCTGATAAAGTAAT
Found at i:3385091 original size:83 final size:83
Alignment explanation
Indices: 3384893--3385181 Score: 331
Period size: 81 Copynumber: 3.5 Consensus size: 83
3384883 AAAAGAAACT
* * * * * *
3384893 ATTTACAGCATAGCTTAAGTCCATAAAGGTTATCTG--TCAAAGACCTTCGAGTTCCATTACACT
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCAACAAAGACCTTCGAGTTCGATTACACT
3384956 CAGCTTCA-AGGGCACATC
66 CAGC-TCAGAGGGCACATC
* *
3384974 ATTTGCAGCATAACTTAAGTCGATG-AGGGTTATCTGTCAACAAAGACCTTTGAGTTCGATTACA
1 ATTTGCAGCATAGCTTAAGTCGA-GAAGGGTTATCTG-CAACAAAGACCTTCGAGTTCGATTACA
3385038 CTCAGCTCAGA-GGCACATC
64 CTCAGCTCAGAGGGCACATC
* * * **
3385057 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGC--CAAGGACCCCCGAGTTCGATTACACT
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCAACAAAGACCTTCGAGTTCGATTACACT
*
3385120 CAGCTCCGAGGGCACATC
66 CAGCTCAGAGGGCACATC
* * * *
3385138 ATTTGTAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG-CAACAAA
3385182 TACCATTGAG
Statistics
Matches: 175, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
80 30 0.17
81 68 0.39
82 3 0.02
83 42 0.24
84 32 0.18
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.26
Consensus pattern (83 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCAACAAAGACCTTCGAGTTCGATTACACT
CAGCTCAGAGGGCACATC
Found at i:3385173 original size:164 final size:164
Alignment explanation
Indices: 3384893--3385193 Score: 397
Period size: 164 Copynumber: 1.8 Consensus size: 164
3384883 AAAAGAAACT
* * * **
3384893 ATTTACAGCATAGCTTAAGTCCATAAAGGTTATCTGTCAAAGACCTTCGAGTTCCATTACACTCA
1 ATTTACAGCATAGCTTAAGTCCAGAAAGGCTATCTGCCAAAGACCCCCGAGTTCCATTACACTCA
* * * * *
3384958 GCTTCAAGGGCACATCATTTGCAGCATAACTTAAGTCGATGAGGGTTATCTGTCAACAAAGACCT
66 GCTCCAAGGGCACATCATTTGCAGCATAACTCAAGGCGATGAGGGTTATCTGCCAACAAAGACCA
3385023 TTGAGTTCGATTACACTCAGCTCAGAGGCACATC
131 TTGAGTTCGATTACACTCAGCTCAGAGGCACATC
* * * * * *
3385057 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAGGACCCCCGAGTTCGATTACACTCA
1 ATTTACAGCATAGCTTAAGTCCAGAAAGGCTATCTGCCAAAGACCCCCGAGTTCCATTACACTCA
* * * * *
3385122 GCTCCGAGGGCACATCATTTGTAGCATAGCTCAAGGCTA-GAAGGGTTATCTGCCAACAAATACC
66 GCTCCAAGGGCACATCATTTGCAGCATAACTCAAGGCGATG-AGGGTTATCTGCCAACAAAGACC
3385186 ATTGAGTT
130 ATTGAGTT
3385194 TCAAGGCTAG
Statistics
Matches: 115, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
163 1 0.01
164 114 0.99
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (164 bp):
ATTTACAGCATAGCTTAAGTCCAGAAAGGCTATCTGCCAAAGACCCCCGAGTTCCATTACACTCA
GCTCCAAGGGCACATCATTTGCAGCATAACTCAAGGCGATGAGGGTTATCTGCCAACAAAGACCA
TTGAGTTCGATTACACTCAGCTCAGAGGCACATC
Found at i:3386038 original size:77 final size:75
Alignment explanation
Indices: 3385948--3386094 Score: 206
Period size: 75 Copynumber: 1.9 Consensus size: 75
3385938 ACAAATCTTG
**
3385948 AAAATAAATAGTTTTGAAAACATGTTTGAAAACATTTATATATTATATAT-TTTTTTAAAAACAT
1 AAAATAAATAGTTTTGAAAACATGTTTG-AAA-ATAAATATATTATATATATTTTTT-AAAACAT
3386012 TTTGAAAATAAAT
63 TTTGAAAATAAAT
* * * *
3386025 AAAATATATAGTTTTTAAAACTTTTTTGAAAATAAATATATTATATATATTTTTTAAAACATTTT
1 AAAATAAATAGTTTTGAAAACATGTTTGAAAATAAATATATTATATATATTTTTTAAAACATTTT
3386090 GAAAA
66 GAAAA
3386095 ATATATAGTT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
75 30 0.48
76 9 0.14
77 24 0.38
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (75 bp):
AAAATAAATAGTTTTGAAAACATGTTTGAAAATAAATATATTATATATATTTTTTAAAACATTTT
GAAAATAAAT
Found at i:3386052 original size:37 final size:38
Alignment explanation
Indices: 3385950--3386094 Score: 150
Period size: 39 Copynumber: 3.8 Consensus size: 38
3385940 AAATCTTGAA
* * * **
3385950 AATAAATAGTTTTGAAAACATGTTTGAAAACATTTATAT
1 AATATATAGTTTTTAAAACAT-TTTGAAAATAAATATAT
* *
3385989 ATTATATATTTTTTTAAAAACATTTTGAAAATAAATA-A-
1 AATATATA-GTTTTT-AAAACATTTTGAAAATAAATATAT
*
3386027 AATATATAGTTTTTAAAACTTTTTTGAAAATAAATATAT
1 AATATATAGTTTTTAAAAC-ATTTTGAAAATAAATATAT
* *
3386066 TATATATATTTTTTAAAACATTTTGAAAA
1 AATATATAGTTTTTAAAACATTTTGAAAA
3386095 ATATATAGTT
Statistics
Matches: 88, Mismatches: 13, Indels: 11
0.79 0.12 0.10
Matches are distributed among these distances:
36 5 0.06
37 20 0.23
38 17 0.19
39 24 0.27
40 15 0.17
41 7 0.08
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (38 bp):
AATATATAGTTTTTAAAACATTTTGAAAATAAATATAT
Found at i:3386097 original size:39 final size:38
Alignment explanation
Indices: 3385985--3386094 Score: 154
Period size: 37 Copynumber: 2.9 Consensus size: 38
3385975 GAAAACATTT
3385985 ATATATTATATAT-TTTTTTAAAAACATTTTGAAAATAA
1 ATATATTATATATATTTTTT-AAAACATTTTGAAAATAA
* * *
3386023 ATA-A-AATATATAGTTTTTAAAACTTTTTTGAAAATAA
1 ATATATTATATATATTTTTTAAAAC-ATTTTGAAAATAA
3386060 ATATATTATATATATTTTTTAAAACATTTTGAAAA
1 ATATATTATATATATTTTTTAAAACATTTTGAAAA
3386095 ATATATAGTT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
36 11 0.18
37 21 0.34
38 13 0.21
39 17 0.27
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (38 bp):
ATATATTATATATATTTTTTAAAACATTTTGAAAATAA
Found at i:3386098 original size:28 final size:30
Alignment explanation
Indices: 3386067--3386130 Score: 105
Period size: 29 Copynumber: 2.2 Consensus size: 30
3386057 TAAATATATT
*
3386067 ATATATA-TTTTTTAAAACATTTTGAAAA-
1 ATATATAGTTTTTAAAAACATTTTGAAAAC
3386095 ATATATAGTTTTTAAAAACATTTTGAAAAC
1 ATATATAGTTTTTAAAAACATTTTGAAAAC
3386125 ATATAT
1 ATATAT
3386131 GTTATATAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
28 7 0.21
29 20 0.61
30 6 0.18
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (30 bp):
ATATATAGTTTTTAAAAACATTTTGAAAAC
Found at i:3386101 original size:67 final size:67
Alignment explanation
Indices: 3386025--3386238 Score: 191
Period size: 67 Copynumber: 3.1 Consensus size: 67
3386015 GAAAATAAAT
* *
3386025 AAAATATATAGTTTTTAAAACTTTTTTGAAAATAAATATATTATATATATTTTTTAAAACATTTT
1 AAAATATATAGTTTTTAAAACTTTTTTGAAAAAAAATATATTATATATATTTTTAAAAACATTTT
3386090 GA
66 GA
* * * * **
3386092 AAAATATATAGTTTTTAAAAAC-ATTTTGAAAACATATATGTTATATAGT-TTTAAAAAAACATT
1 AAAATATATAGTTTTT-AAAACTTTTTTGAAAAAAAATATATTATATA-TATTTTTAAAAACA-T
*
3386155 TTTTA
63 TTTGA
* * * ** * * *
3386160 AAACTATATAATTTTGAAAACATTTTTAAAAAAAAAATTATAATACATATAATTTTAAATAAC-T
1 AAAATATATAGTTTTTAAAAC-TTTTTTGAAAAAAAA-TATATTATATATATTTTTAAA-AACAT
3386224 TTTGA
63 TTTGA
3386229 AAATATATAT
1 AAA-ATATAT
3386239 TATATAGATT
Statistics
Matches: 114, Mismatches: 24, Indels: 15
0.75 0.16 0.10
Matches are distributed among these distances:
67 51 0.45
68 24 0.21
69 18 0.16
70 18 0.16
71 3 0.03
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (67 bp):
AAAATATATAGTTTTTAAAACTTTTTTGAAAAAAAATATATTATATATATTTTTAAAAACATTTT
GA
Found at i:3386266 original size:25 final size:23
Alignment explanation
Indices: 3386208--3386269 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 23
3386198 TATAATACAT
*
3386208 ATAATTTTAAATAACTTTTGAAA
1 ATAATTTTATATAACTTTTGAAA
* *
3386231 ATATATATTATATAGATTTTTGGAAA
1 ATA-ATTTTATATA-ACTTTT-GAAA
3386257 ATAATTTTATATA
1 ATAATTTTATATA
3386270 TATATATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 3 0.09
24 8 0.25
25 14 0.44
26 7 0.22
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (23 bp):
ATAATTTTATATAACTTTTGAAA
Found at i:3386333 original size:13 final size:13
Alignment explanation
Indices: 3386315--3386343 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3386305 ATTATTATTA
3386315 TTATTTTCATTTT
1 TTATTTTCATTTT
3386328 TTATTTTCATTTT
1 TTATTTTCATTTT
3386341 TTA
1 TTA
3386344 GGGGTCCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTTTCATTTT
Found at i:3387638 original size:15 final size:16
Alignment explanation
Indices: 3387613--3387646 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
3387603 TTTTTACTTT
3387613 TTTTTACTTTTTTTCA
1 TTTTTACTTTTTTTCA
*
3387629 TTTTTA-TTTTTTTGA
1 TTTTTACTTTTTTTCA
3387644 TTT
1 TTT
3387647 GTTTTCTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTTACTTTTTTTCA
Found at i:3388634 original size:16 final size:16
Alignment explanation
Indices: 3388613--3388643 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3388603 TATGTTCGAT
*
3388613 TAAATCCTCGTCACAA
1 TAAATCCTAGTCACAA
3388629 TAAATCCTAGTCACA
1 TAAATCCTAGTCACA
3388644 TAATTAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.29, G:0.06, T:0.26
Consensus pattern (16 bp):
TAAATCCTAGTCACAA
Found at i:3389528 original size:45 final size:45
Alignment explanation
Indices: 3389479--3389613 Score: 143
Period size: 45 Copynumber: 3.0 Consensus size: 45
3389469 TTGAACATCG
3389479 AATGCATTTTATACATCGATGCACATACCATGCATCGATGCACTC
1 AATGCATTTTATACATCGATGCACATACCATGCATCGATGCACTC
* * *
3389524 AATGCATTTGATCCATCGATGCACA-AGCCATGCATTGATGCACTC
1 AATGCATTTTATACATCGATGCACATA-CCATGCATCGATGCACTC
* * **
3389569 -AGGCTATTTTAAAACATCGAATG--CATTTCATGCATCGATGCACTC
1 AATGC-ATTTT-ATACATCG-ATGCACATACCATGCATCGATGCACTC
3389614 TTAGTGCACC
Statistics
Matches: 75, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
44 4 0.05
45 62 0.83
46 6 0.08
47 3 0.04
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (45 bp):
AATGCATTTTATACATCGATGCACATACCATGCATCGATGCACTC
Found at i:3395439 original size:44 final size:44
Alignment explanation
Indices: 3395389--3395485 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
3395379 TTGTGCTTCA
*
3395389 TGCATCGATACA-C-TTAACAGTGCATCGATGCATC-CCTTTGAATG
1 TGCATCGATACATCATGAACA-TGCATCGATGCA-CGCC-TTGAATG
* *
3395433 TGCATCGATTCATCATGAATATGCATCGATGCACGCCTTGAATG
1 TGCATCGATACATCATGAACATGCATCGATGCACGCCTTGAATG
3395477 TGCATCGAT
1 TGCATCGAT
3395486 GCACAAGGCC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 28 0.60
45 15 0.32
46 4 0.09
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
TGCATCGATACATCATGAACATGCATCGATGCACGCCTTGAATG
Found at i:3395480 original size:23 final size:22
Alignment explanation
Indices: 3395408--3395489 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 22
3395398 ACACTTAACA
3395408 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCA-CCC-TTGAAT
* * *
3395432 GTGCATCGATTCA-TCATGAAT
1 GTGCATCGATGCACCCTTGAAT
*
3395453 ATGCATCGATGCACGCCTTGAAT
1 GTGCATCGATGCAC-CCTTGAAT
3395476 GTGCATCGATGCAC
1 GTGCATCGATGCAC
3395490 AAGGCCATGC
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
21 16 0.33
22 1 0.02
23 19 0.40
24 12 0.25
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (22 bp):
GTGCATCGATGCACCCTTGAAT
Found at i:3397040 original size:2 final size:2
Alignment explanation
Indices: 3397033--3397065 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3397023 CAGCTTAAGC
3397033 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3397066 CAATTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3397521 original size:20 final size:20
Alignment explanation
Indices: 3397496--3397547 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
3397486 TTTTTCAAAG
3397496 TGATGCACCAATCCATGCAT
1 TGATGCACCAATCCATGCAT
3397516 TGATGCACCAATCCATGCAT
1 TGATGCACCAATCCATGCAT
*
3397536 CGATGCACCAAT
1 TGATGCACCAAT
3397548 GAATAAATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (20 bp):
TGATGCACCAATCCATGCAT
Found at i:3399802 original size:15 final size:15
Alignment explanation
Indices: 3399782--3399810 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3399772 AGTAAATGTA
3399782 TTAATTATATGTTTC
1 TTAATTATATGTTTC
3399797 TTAATTATATGTTT
1 TTAATTATATGTTT
3399811 AGTTTACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (15 bp):
TTAATTATATGTTTC
Found at i:3400000 original size:15 final size:16
Alignment explanation
Indices: 3399960--3400002 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
3399950 AATAAGGAAG
* *
3399960 AAATATAAAAAAATTA
1 AAATCTAAAATAATTA
*
3399976 AAATCCAAAATAATTA
1 AAATCTAAAATAATTA
3399992 AAA-CTAAAATA
1 AAATCTAAAATA
3400003 GACTAATAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATCTAAAATAATTA
Found at i:3400558 original size:22 final size:24
Alignment explanation
Indices: 3400527--3400580 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
3400517 AAATATCTAA
*
3400527 TAAATTCTTATATTT-C-TTAACT
1 TAAATACTTATATTTACATTAACT
*
3400549 TAAATACTTATTTTTACATTAACT
1 TAAATACTTATATTTACATTAACT
*
3400573 AAAATACT
1 TAAATACT
3400581 ATAAGATCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 13 0.48
23 1 0.04
24 13 0.48
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (24 bp):
TAAATACTTATATTTACATTAACT
Found at i:3403809 original size:42 final size:42
Alignment explanation
Indices: 3403701--3403917 Score: 242
Period size: 42 Copynumber: 5.4 Consensus size: 42
3403691 ATAAAGAAGT
*
3403701 AAATAAATAATATCATAACACCATTAAGTCTCAATAAGTCTA
1 AAATAAATAACATCATAACACCATTAAGTCTCAATAAGTCTA
*
3403743 AAATAAAATAACA-CTATAACACCATTAAGTCTCAGTAAGTCTA
1 AAAT-AAATAACATC-ATAACACCATTAAGTCTCAATAAGTCTA
*
3403786 AAATAAATAACATCATAATACCATTAAGTCTCAATAAGTCTA
1 AAATAAATAACATCATAACACCATTAAGTCTCAATAAGTCTA
* *
3403828 AAATAAATAACATCAT---A--A-T-A---TCATTAAATCTA
1 AAATAAATAACATCATAACACCATTAAGTCTCAATAAGTCTA
* * *
3403860 AAATAAATAATATCATAACACTAATAAGTCTCAATAAGTCT-
1 AAATAAATAACATCATAACACCATTAAGTCTCAATAAGTCTA
3403901 AAATAAAATCAACATCA
1 AAAT-AAAT-AACATCA
3403918 ATAATATTCA
Statistics
Matches: 150, Mismatches: 10, Indels: 29
0.79 0.05 0.15
Matches are distributed among these distances:
32 25 0.17
35 2 0.01
36 1 0.01
37 2 0.01
38 1 0.01
39 2 0.01
41 4 0.03
42 68 0.45
43 45 0.30
ACGTcount: A:0.52, C:0.16, G:0.04, T:0.28
Consensus pattern (42 bp):
AAATAAATAACATCATAACACCATTAAGTCTCAATAAGTCTA
Found at i:3403860 original size:74 final size:76
Alignment explanation
Indices: 3403782--3403924 Score: 220
Period size: 74 Copynumber: 1.9 Consensus size: 76
3403772 TCTCAGTAAG
* *
3403782 TCTAAAATAAATAACATCATAATACCATTAAGTCTCAATAAGTCTAAA-ATAAAT-AACATC-AT
1 TCTAAAATAAATAACATCATAACACCAATAAGTCTCAATAAGTCTAAATA-AAATCAACATCAAT
3403844 AATATCATTAAA
65 AATATCATTAAA
* *
3403856 TCTAAAATAAATAATATCATAACACTAATAAGTCTCAATAAGTCTAAATAAAATCAACATCAATA
1 TCTAAAATAAATAACATCATAACACCAATAAGTCTCAATAAGTCTAAATAAAATCAACATCAATA
3403921 ATAT
66 ATAT
3403925 TCAATGTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 48 0.77
75 7 0.11
76 7 0.11
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.29
Consensus pattern (76 bp):
TCTAAAATAAATAACATCATAACACCAATAAGTCTCAATAAGTCTAAATAAAATCAACATCAATA
ATATCATTAAA
Found at i:3406060 original size:77 final size:79
Alignment explanation
Indices: 3405971--3406119 Score: 198
Period size: 77 Copynumber: 1.9 Consensus size: 79
3405961 AATAAAAAAA
*
3405971 TCTTATTTAATTAATT-CAAATTAAATATTC-ATT-AAAGACTTATAATCCGAATTACAATCTT-
1 TCTTATTTAATT-ATTCCAAATTAAATA-TCGATTAAAAGACTTATAATCAGAATTACAATCTTA
3406032 TAACATTTATTTAAAC
64 TAACATTTATTTAAAC
* * * *
3406048 TCTTATTTAATTATTCCGAATTAAATATCGATTAAAAGAGTTGTAATCAGAATTACATTCTTATA
1 TCTTATTTAATTATTCCAAATTAAATATCGATTAAAAGACTTATAATCAGAATTACAATCTTATA
*
3406113 ATATTTA
66 ACATTTA
3406120 CTTACTATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
76 5 0.08
77 25 0.40
78 24 0.39
79 8 0.13
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.43
Consensus pattern (79 bp):
TCTTATTTAATTATTCCAAATTAAATATCGATTAAAAGACTTATAATCAGAATTACAATCTTATA
ACATTTATTTAAAC
Found at i:3407167 original size:2 final size:2
Alignment explanation
Indices: 3407162--3407186 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3407152 GAGAGGATCA
3407162 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3407187 GGGACATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3407781 original size:26 final size:26
Alignment explanation
Indices: 3407750--3407812 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 26
3407740 TGCTCGTTAA
3407750 ACTCGTTAAAATTG-TGCTCAACTCG
1 ACTCGTTAAAATTGTTGCTCAACTCG
*
3407775 TGCTCGTTAAAAAAATTGTTGCTCAACTCG
1 -ACTCGTT---AAAATTGTTGCTCAACTCG
3407805 ACTCGTTA
1 ACTCGTTA
3407813 CTCGTTAAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
26 7 0.23
29 13 0.42
30 11 0.35
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (26 bp):
ACTCGTTAAAATTGTTGCTCAACTCG
Found at i:3407789 original size:29 final size:29
Alignment explanation
Indices: 3407757--3407812 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
3407747 TAAACTCGTT
*
3407757 AAAATTG-TGCTCAACTCGTGCTCGTTAAA
1 AAAATTGTTGCTCAACTCG-ACTCGTTAAA
3407786 AAAATTGTTGCTCAACTCGACTCGTTA
1 AAAATTGTTGCTCAACTCGACTCGTTA
3407813 CTCGTTAAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (29 bp):
AAAATTGTTGCTCAACTCGACTCGTTAAA
Found at i:3407962 original size:22 final size:21
Alignment explanation
Indices: 3407915--3407970 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
3407905 TATTAAAATA
* *
3407915 ATATTATTAATTAATAATATT
1 ATATTATTAATTAAAAATAAT
* *
3407936 TTATTATTTTATTAAAAATAAT
1 ATATTA-TTAATTAAAAATAAT
3407958 ATATTAGTTAATT
1 ATATTA-TTAATT
3407971 TTCATCATTT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 5 0.19
22 22 0.81
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
ATATTATTAATTAAAAATAAT
Found at i:3409235 original size:16 final size:16
Alignment explanation
Indices: 3409214--3409246 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3409204 TTCCTGTGAA
*
3409214 TAACCGGAATACTTTC
1 TAACCGAAATACTTTC
3409230 TAACCGAAATACTTTC
1 TAACCGAAATACTTTC
3409246 T
1 T
3409247 TTACAGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (16 bp):
TAACCGAAATACTTTC
Found at i:3409288 original size:2 final size:2
Alignment explanation
Indices: 3409281--3409327 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
3409271 GAAGTGAAAT
3409281 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3409323 TA TA T
1 TA TA T
3409328 TTTCGTAGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3415177 original size:15 final size:15
Alignment explanation
Indices: 3415145--3415189 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
3415135 AAATTGAAAA
*
3415145 ATATAATATATATAT
1 ATATAATATAAATAT
3415160 ATATAATATAAA-AT
1 ATATAATATAAATAT
3415174 -TAT-ATATAAACTAT
1 ATATAATATAAA-TAT
3415188 AT
1 AT
3415190 TTATATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 7 0.27
13 3 0.12
14 4 0.15
15 12 0.46
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATAATATAAATAT
Found at i:3415188 original size:11 final size:11
Alignment explanation
Indices: 3415151--3415379 Score: 72
Period size: 11 Copynumber: 20.4 Consensus size: 11
3415141 AAAAATATAA
*
3415151 TATATATATA-
1 TATATATAAAC
*
3415161 TATAATATAAAAT
1 TAT-ATAT-AAAC
3415174 TATATATAAAC
1 TATATATAAAC
*
3415185 TATAT-T-TA-
1 TATATATAAAC
3415193 TAT-TATAAAC
1 TATATATAAAC
*
3415203 --TATA-AAAT
1 TATATATAAAC
3415211 TAT-TATAAAC
1 TATATATAAAC
*
3415221 TATATATAAAT
1 TATATATAAAC
*
3415232 TATATTTATGTGAAC
1 TATA--TA--TAAAC
3415247 TATATATAAAC
1 TATATATAAAC
3415258 TATGTATATAAA-
1 TA--TATATAAAC
3415270 -AT-TATAAAC
1 TATATATAAAC
* * *
3415279 TATATTTATAT
1 TATATATAAAC
3415290 TATAACTATATAA-
1 TAT-A-TATA-AAC
*
3415303 T-TATATAAGC
1 TATATATAAAC
*
3415313 TATATATAAAT
1 TATATATAAAC
* *
3415324 TATGTTTATGTGAAC
1 TA----TATATAAAC
3415339 TATATATAAAC
1 TATATATAAAC
3415350 TATGTATATAAAC
1 TA--TATATAAAC
3415363 TATATGTATAAAC
1 TATA--TATAAAC
3415376 TATA
1 TATA
3415380 AAAAGTATAT
Statistics
Matches: 163, Mismatches: 23, Indels: 63
0.65 0.09 0.25
Matches are distributed among these distances:
7 1 0.01
8 14 0.09
9 8 0.05
10 18 0.11
11 57 0.35
12 8 0.05
13 41 0.25
14 1 0.01
15 15 0.09
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (11 bp):
TATATATAAAC
Found at i:3415218 original size:36 final size:37
Alignment explanation
Indices: 3415150--3415267 Score: 127
Period size: 36 Copynumber: 3.2 Consensus size: 37
3415140 GAAAAATATA
3415150 ATATATATA-TATATAATATAAAATTATATATAAACT
1 ATATATATATTATATAATATAAAATTATATATAAACT
*
3415186 ATATTTATATTATA-AACTATAAAATTAT-TATAAACT
1 ATATATATATTATATAA-TATAAAATTATATATAAACT
* * ** *
3415222 ATATATAAATTATAT-TTATGTGAACTATATATAAACT
1 ATATATATATTATATAATAT-AAAATTATATATAAACT
*
3415259 ATGTATATA
1 ATATATATA
3415268 AAATTATAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
35 3 0.04
36 35 0.51
37 30 0.44
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (37 bp):
ATATATATATTATATAATATAAAATTATATATAAACT
Found at i:3415226 original size:47 final size:46
Alignment explanation
Indices: 3415165--3415407 Score: 158
Period size: 47 Copynumber: 5.1 Consensus size: 46
3415155 TATATATATA
*
3415165 ATATAAAATTATATATAAACTATATTTATATTATAAACTATAAAATT
1 ATAT-AAACTATATATAAACTATATTTATATTATAAACTATAAAATT
* * * *
3415212 ATTATAAACTATATATAAATTATATTTATGTGAACTATA-TATAAACTATGT
1 A-TATAAACTATATATAAACTATATTTATAT-TA-TAAACTATAAA--AT-T
*
3415263 ATATAAA--AT-TATAAACTATATTTATATTAT-AACTATATAATT
1 ATATAAACTATATATAAACTATATTTATATTATAAACTATAAAATT
* * * * * *
3415305 ATATAAGCTATATATAAATTATGTTTATGTGAACTATA-TATAAACTATGT
1 ATATAAACTATATATAAACTATATTTATAT-TA-TAAACTATAAA--AT-T
*** *
3415355 ATATAAACTATATGTATAAACTATAAAAAGTA-TATAAACTATAAAAGT
1 ATATAAACTATA--TATAAACTATATTTA-TATTATAAACTATAAAATT
3415403 ATATA
1 ATATA
3415408 GTTTATAAAA
Statistics
Matches: 149, Mismatches: 27, Indels: 39
0.69 0.13 0.18
Matches are distributed among these distances:
42 7 0.05
43 2 0.01
44 3 0.02
45 21 0.14
46 2 0.01
47 46 0.31
48 19 0.13
49 6 0.04
50 23 0.15
51 9 0.06
52 10 0.07
53 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (46 bp):
ATATAAACTATATATAAACTATATTTATATTATAAACTATAAAATT
Found at i:3415282 original size:17 final size:17
Alignment explanation
Indices: 3415262--3415326 Score: 55
Period size: 17 Copynumber: 3.8 Consensus size: 17
3415252 ATAAACTATG
3415262 TATATAAAATTATAAAC
1 TATATAAAATTATAAAC
* *
3415279 TATATTTATATTAT-AAC
1 TATA-TAAAATTATAAAC
3415296 TATAT--AATTATATAAGC
1 TATATAAAATTATA-AA-C
3415313 TATATATAAATTAT
1 TATATA-AAATTAT
3415327 GTTTATGTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
14 5 0.13
16 3 0.08
17 17 0.45
18 7 0.18
20 6 0.16
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.45
Consensus pattern (17 bp):
TATATAAAATTATAAAC
Found at i:3415334 original size:92 final size:94
Alignment explanation
Indices: 3415178--3415361 Score: 327
Period size: 92 Copynumber: 2.0 Consensus size: 94
3415168 TAAAATTATA
3415178 TATAAACTATATTTATATTATAAACTATAAAATTATTATAAACTATATATAAATTATATTTATGT
1 TATAAACTATATTTATATTATAAACTATAAAATTATTATAAACTATATATAAATTATATTTATGT
3415243 GAACTATATATAAACTATGTATATAAAAT
66 GAACTATATATAAACTATGTATATAAAAT
* * *
3415272 TATAAACTATATTTATATTAT-AACTATATAATTA-TATAAGCTATATATAAATTATGTTTATGT
1 TATAAACTATATTTATATTATAAACTATAAAATTATTATAAACTATATATAAATTATATTTATGT
3415335 GAACTATATATAAACTATGTATATAAA
66 GAACTATATATAAACTATGTATATAAA
3415362 CTATATGTAT
Statistics
Matches: 87, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
92 54 0.62
93 12 0.14
94 21 0.24
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43
Consensus pattern (94 bp):
TATAAACTATATTTATATTATAAACTATAAAATTATTATAAACTATATATAAATTATATTTATGT
GAACTATATATAAACTATGTATATAAAAT
Found at i:3415359 original size:13 final size:13
Alignment explanation
Indices: 3415339--3415379 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
3415329 TTATGTGAAC
3415339 TATATATAAACTA
1 TATATATAAACTA
*
3415352 TGTATATAAACTA
1 TATATATAAACTA
*
3415365 TATGTATAAACTA
1 TATATATAAACTA
3415378 TA
1 TA
3415380 AAAAGTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:3415402 original size:17 final size:18
Alignment explanation
Indices: 3415369--3415407 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
3415359 AAACTATATG
3415369 TATAAACTATAAAAAGTA
1 TATAAACTATAAAAAGTA
3415387 TATAAACTAT-AAAAGTA
1 TATAAACTATAAAAAGTA
3415404 TATA
1 TATA
3415408 GTTTATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (18 bp):
TATAAACTATAAAAAGTA
Found at i:3415458 original size:15 final size:15
Alignment explanation
Indices: 3415434--3415473 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
3415424 TATAATATAG
3415434 TATATATATAAACTA
1 TATATATATAAACTA
*
3415449 TATATGTATAAACTA
1 TATATATATAAACTA
*
3415464 TATAAATATA
1 TATATATATA
3415474 TAGTTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (15 bp):
TATATATATAAACTA
Found at i:3415514 original size:31 final size:31
Alignment explanation
Indices: 3415447--3415516 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
3415437 ATATATAAAC
3415447 TATATATG-TATAAACTATATAAATATATAG
1 TATATATGTTATAAACTATATAAATATATAG
* ** *
3415477 TTTATATGTTATAATTTATATTAATATAGTA-
1 TATATATGTTATAAACTATATAAATATA-TAG
3415508 TATATATGT
1 TATATATGT
3415517 ATGTATTAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
30 7 0.21
31 24 0.73
32 2 0.06
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (31 bp):
TATATATGTTATAAACTATATAAATATATAG
Found at i:3415697 original size:7 final size:7
Alignment explanation
Indices: 3415682--3415732 Score: 57
Period size: 7 Copynumber: 7.3 Consensus size: 7
3415672 ATACATATAG
3415682 TAGGGTT
1 TAGGGTT
*
3415689 TAGGATT
1 TAGGGTT
3415696 TAGGGTT
1 TAGGGTT
3415703 TAGGGTT
1 TAGGGTT
* *
3415710 TATGATT
1 TAGGGTT
*
3415717 TAAGGTT
1 TAGGGTT
*
3415724 TAAGGTT
1 TAGGGTT
3415731 TA
1 TA
3415733 TATAAACTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (7 bp):
TAGGGTT
Found at i:3415708 original size:21 final size:21
Alignment explanation
Indices: 3415682--3415732 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
3415672 ATACATATAG
*
3415682 TAGGGTTTAGGATTTAGGGTT
1 TAGGGTTTAGGATTTAAGGTT
*
3415703 TAGGGTTTATGATTTAAGGTT
1 TAGGGTTTAGGATTTAAGGTT
*
3415724 TAAGGTTTA
1 TAGGGTTTA
3415733 TATAAACTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (21 bp):
TAGGGTTTAGGATTTAAGGTT
Found at i:3415985 original size:20 final size:20
Alignment explanation
Indices: 3415960--3416012 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
3415950 AAATTTTCTA
3415960 TTCCCTCTAAATTTCTCAAT
1 TTCCCTCTAAATTTCTCAAT
*
3415980 TTCCCTCTAAATTTCTTAAT
1 TTCCCTCTAAATTTCTCAAT
3416000 TTCCCTCTAAATT
1 TTCCCTCTAAATT
3416013 CCCAAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47
Consensus pattern (20 bp):
TTCCCTCTAAATTTCTCAAT
Found at i:3415994 original size:12 final size:12
Alignment explanation
Indices: 3415960--3416012 Score: 50
Period size: 12 Copynumber: 5.1 Consensus size: 12
3415950 AAATTTTCTA
3415960 TTCCCTCTAAAT
1 TTCCCTCTAAAT
3415972 TT--CTC--AAT
1 TTCCCTCTAAAT
3415980 TTCCCTCTAAAT
1 TTCCCTCTAAAT
3415992 TT--CT-T-AAT
1 TTCCCTCTAAAT
3416000 TTCCCTCTAAAT
1 TTCCCTCTAAAT
3416012 T
1 T
3416013 CCCAAATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 16
0.67 0.00 0.33
Matches are distributed among these distances:
8 10 0.30
9 1 0.03
10 10 0.30
11 1 0.03
12 11 0.33
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47
Consensus pattern (12 bp):
TTCCCTCTAAAT
Found at i:3416599 original size:19 final size:19
Alignment explanation
Indices: 3416558--3416606 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
3416548 ATGACCAACA
* *
3416558 AATTCGCAACGCGATCACG
1 AATTCGCAACGCGAACACC
* *
3416577 AATTCGCAACGTGAACTCC
1 AATTCGCAACGCGAACACC
3416596 AATTTCGCAAC
1 AA-TTCGCAAC
3416607 TCAGTTTTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (19 bp):
AATTCGCAACGCGAACACC
Found at i:3417384 original size:21 final size:20
Alignment explanation
Indices: 3417359--3417406 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
3417349 AATTTCTTTC
3417359 TCGCAACCCAATTTTCCAAAT
1 TCGCAACCCAA-TTTCCAAAT
* *
3417380 TCGCAACGCGATTTCCAAAT
1 TCGCAACCCAATTTCCAAAT
3417400 TCGCAAC
1 TCGCAAC
3417407 ACGGAATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.31, C:0.33, G:0.10, T:0.25
Consensus pattern (20 bp):
TCGCAACCCAATTTCCAAAT
Found at i:3417396 original size:20 final size:21
Alignment explanation
Indices: 3417371--3417456 Score: 88
Period size: 20 Copynumber: 4.2 Consensus size: 21
3417361 GCAACCCAAT
*
3417371 TTTCCAAATTCGCAACGCG-A
1 TTTCCAAATTCACAACGCGAA
* *
3417391 TTTCCAAATTCGCAACACGGAA
1 TTTCCAAATTCACAACGC-GAA
*
3417413 TTT-CAAATTCACAACTCG-A
1 TTTCCAAATTCACAACGCGAA
**
3417432 TTTCTGAATTCACAACGCGAA
1 TTTCCAAATTCACAACGCGAA
3417453 TTTC
1 TTTC
3417457 TTTTTCGCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
19 4 0.07
20 30 0.54
21 18 0.32
22 4 0.07
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.29
Consensus pattern (21 bp):
TTTCCAAATTCACAACGCGAA
Found at i:3417442 original size:41 final size:40
Alignment explanation
Indices: 3417375--3417456 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 40
3417365 CCCAATTTTC
* *
3417375 CAAATTCGCAACGCGATTTCCAAATTCGCAACACGGAATTT
1 CAAATTCACAACGCGATTTCCAAATTCACAACAC-GAATTT
* ** *
3417416 CAAATTCACAACTCGATTTCTGAATTCACAACGCGAATTT
1 CAAATTCACAACGCGATTTCCAAATTCACAACACGAATTT
3417456 C
1 C
3417457 TTTTTCGCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
40 7 0.20
41 28 0.80
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (40 bp):
CAAATTCACAACGCGATTTCCAAATTCACAACACGAATTT
Found at i:3417522 original size:40 final size:40
Alignment explanation
Indices: 3417461--3417556 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
3417451 AATTTCTTTT
* *
3417461 TCGCAACAC-AAGTTTCCTTTTCGAAACAAGATTTTCTAAA
1 TCGCAACACGAA-TTTTCTTTTCGAAACAAGATTTTCGAAA
* * ** *
3417501 TCGCAACACGAATTTTGTTTTCGCAACTCGATTTTCGAAT
1 TCGCAACACGAATTTTCTTTTCGAAACAAGATTTTCGAAA
*
3417541 TCGCAACATGAATTTT
1 TCGCAACACGAATTTT
3417557 AATTTCGCAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 45 0.96
41 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.35
Consensus pattern (40 bp):
TCGCAACACGAATTTTCTTTTCGAAACAAGATTTTCGAAA
Found at i:3417524 original size:20 final size:20
Alignment explanation
Indices: 3417501--3417568 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
3417491 ATTTTCTAAA
*
3417501 TCGCAACACGAATTTTGTTT
1 TCGCAACACGAATTTTGATT
* *
3417521 TCGCAACTCG-ATTTTCGAAT
1 TCGCAACACGAATTTT-GATT
* *
3417541 TCGCAACATGAATTTTAATT
1 TCGCAACACGAATTTTGATT
3417561 TCGCAACA
1 TCGCAACA
3417569 ACTTTTATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 5 0.13
20 29 0.74
21 5 0.13
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.35
Consensus pattern (20 bp):
TCGCAACACGAATTTTGATT
Found at i:3417563 original size:40 final size:40
Alignment explanation
Indices: 3417490--3417567 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
3417480 TTCGAAACAA
* **
3417490 GATTTTCTAAATCGCAACACGAATTTTGTTTTCGCAACTC
1 GATTTTCGAAATCGCAACACGAATTTTAATTTCGCAACTC
* *
3417530 GATTTTCGAATTCGCAACATGAATTTTAATTTCGCAAC
1 GATTTTCGAAATCGCAACACGAATTTTAATTTCGCAAC
3417568 AACTTTTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (40 bp):
GATTTTCGAAATCGCAACACGAATTTTAATTTCGCAACTC
Found at i:3418539 original size:24 final size:24
Alignment explanation
Indices: 3418512--3418582 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
3418502 AGTCAGTATT
*
3418512 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
3418536 CGAACTTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
*
3418560 CGGACTTTGATCTTGGTCAATAC
1 CGAACTTTGATCTTGGTCAATAC
3418583 TCAGATTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Found at i:3418592 original size:24 final size:23
Alignment explanation
Indices: 3418517--3418594 Score: 102
Period size: 24 Copynumber: 3.3 Consensus size: 23
3418507 GTATTCGAAA
*
3418517 TTTGATCTTGGTCAATACCCGAAC
1 TTTGATCTTGGTCAATACCAG-AC
*
3418541 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATA-CCAGAC
*
3418565 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATAC-CAGAC
3418589 TTTGAT
1 TTTGAT
3418595 GATGTTTCAG
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
23 1 0.02
24 45 0.92
25 3 0.06
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (23 bp):
TTTGATCTTGGTCAATACCAGAC
Found at i:3420802 original size:21 final size:22
Alignment explanation
Indices: 3420765--3420805 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
3420755 TAGATTGTCC
*
3420765 AGGGGGTACAGATTTCCCCCCA
1 AGGGGGAACAGATTTCCCCCCA
3420787 AGGGGGAACAGA-TTCCCCC
1 AGGGGGAACAGATTTCCCCC
3420806 TAGGGGTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.24, C:0.32, G:0.29, T:0.15
Consensus pattern (22 bp):
AGGGGGAACAGATTTCCCCCCA
Found at i:3420811 original size:19 final size:18
Alignment explanation
Indices: 3420789--3420844 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
3420779 TCCCCCCAAG
3420789 GGGGAACAGATTCCCCCTA
1 GGGGAACAGATTCCCCC-A
*
3420808 GGGGTATC-GATT-CCCC-
1 GGGG-AACAGATTCCCCCA
3420824 -GGGAACAGATTCCCCCA
1 GGGGAACAGATTCCCCCA
3420841 GGGG
1 GGGG
3420845 TATCCATTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 11
0.70 0.05 0.26
Matches are distributed among these distances:
14 2 0.07
15 7 0.23
16 4 0.13
18 7 0.23
19 8 0.27
20 2 0.07
ACGTcount: A:0.21, C:0.30, G:0.32, T:0.16
Consensus pattern (18 bp):
GGGGAACAGATTCCCCCA
Found at i:3420854 original size:33 final size:34
Alignment explanation
Indices: 3420790--3420869 Score: 135
Period size: 33 Copynumber: 2.4 Consensus size: 34
3420780 CCCCCCAAGG
*
3420790 GGGAACAGATTCCCCCTAGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCTAGGGGTATCCATTCCCC
3420824 GGGAACAGATTCCCCC-AGGGGTATCCATTCCCC
1 GGGAACAGATTCCCCCTAGGGGTATCCATTCCCC
*
3420857 GGGTACAGATTCC
1 GGGAACAGATTCC
3420870 TCTTGCATGG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
33 28 0.64
34 16 0.36
ACGTcount: A:0.21, C:0.33, G:0.26, T:0.20
Consensus pattern (34 bp):
GGGAACAGATTCCCCCTAGGGGTATCCATTCCCC
Found at i:3421010 original size:21 final size:21
Alignment explanation
Indices: 3420984--3421025 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
3420974 ATTTGAATAT
*
3420984 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
3421005 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
3421026 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:3424374 original size:20 final size:20
Alignment explanation
Indices: 3424349--3424388 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
3424339 ATCAGATTGT
3424349 CCAGGGGGTA-CAGATTCCCC
1 CCAGGGGGTATC-GATTCCCC
3424369 CCAGGGGGTATCGATTCCCC
1 CCAGGGGGTATCGATTCCCC
3424389 GGGAACAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.17, C:0.35, G:0.30, T:0.17
Consensus pattern (20 bp):
CCAGGGGGTATCGATTCCCC
Found at i:3424401 original size:15 final size:15
Alignment explanation
Indices: 3424381--3424436 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
3424371 AGGGGGTATC
3424381 GATTCCCCGGGAACA
1 GATTCCCCGGGAACA
*
3424396 GATTCCCCCAGGGGTATC-
1 GATT-CCCC--GGG-AACA
*
3424414 GATTCCCCGGGTACA
1 GATTCCCCGGGAACA
3424429 GATTCCCC
1 GATTCCCC
3424437 CTGCATGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
14 1 0.03
15 15 0.45
16 4 0.12
17 4 0.12
18 7 0.21
19 2 0.06
ACGTcount: A:0.20, C:0.36, G:0.25, T:0.20
Consensus pattern (15 bp):
GATTCCCCGGGAACA
Found at i:3424415 original size:33 final size:34
Alignment explanation
Indices: 3424358--3424437 Score: 135
Period size: 33 Copynumber: 2.4 Consensus size: 34
3424348 TCCAGGGGGT
3424358 ACAGATTCCCCCCAGGGGGTATCGATTCCCCGGGA
1 ACAGATT-CCCCCAGGGGGTATCGATTCCCCGGGA
*
3424393 ACAGATTCCCCCA-GGGGTATCGATTCCCCGGGT
1 ACAGATTCCCCCAGGGGGTATCGATTCCCCGGGA
3424426 ACAGATTCCCCC
1 ACAGATTCCCCC
3424438 TGCATGGTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
33 31 0.70
34 6 0.14
35 7 0.16
ACGTcount: A:0.20, C:0.36, G:0.25, T:0.19
Consensus pattern (34 bp):
ACAGATTCCCCCAGGGGGTATCGATTCCCCGGGA
Found at i:3424419 original size:18 final size:18
Alignment explanation
Indices: 3424361--3424421 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
3424351 AGGGGGTACA
3424361 GATTCCCCCCAGGGGGTATC
1 GATT-CCCCCA-GGGGTATC
*
3424381 GATT-CCCC--GGG-AAC
1 GATTCCCCCAGGGGTATC
3424395 AGATTCCCCCAGGGGTATC
1 -GATTCCCCCAGGGGTATC
3424414 GATTCCCC
1 GATTCCCC
3424422 GGGTACAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
14 2 0.06
15 7 0.21
16 4 0.12
18 15 0.44
19 2 0.06
20 4 0.12
ACGTcount: A:0.18, C:0.36, G:0.26, T:0.20
Consensus pattern (18 bp):
GATTCCCCCAGGGGTATC
Found at i:3424576 original size:21 final size:21
Alignment explanation
Indices: 3424550--3424591 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
3424540 ATTTGAATAT
*
3424550 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
3424571 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
3424592 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:3424913 original size:34 final size:32
Alignment explanation
Indices: 3424874--3424943 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
3424864 TTTTGTAAAG
*
3424874 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
3424908 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
3424940 GGGA
1 GGGA
3424944 GTTTGTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:3425559 original size:18 final size:18
Alignment explanation
Indices: 3425536--3425571 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3425526 AAGCAAAAGG
3425536 AAATCAAAATCGCAATCA
1 AAATCAAAATCGCAATCA
*
3425554 AAATCAAAATCTCAATCA
1 AAATCAAAATCGCAATCA
3425572 CAACATGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCGCAATCA
Found at i:3427327 original size:21 final size:21
Alignment explanation
Indices: 3427301--3427423 Score: 119
Period size: 21 Copynumber: 5.9 Consensus size: 21
3427291 GTGAATCGGG
* *
3427301 CTCTTGAACGGTGGAAGGGAC
1 CTCTTGAACGATGGAAGGGGC
*
3427322 CTCTTGAACGAT-GAGAGGGAC
1 CTCTTGAACGATGGA-AGGGGC
*
3427343 CTCTTGAAC-AGTGGGAGGGGC
1 CTCTTGAACGA-TGGAAGGGGC
*
3427364 CTCTTAAACGAT-GAGAGGGGC
1 CTCTTGAACGATGGA-AGGGGC
3427385 CTCTTGAACGATAGG-AGGGGC
1 CTCTTGAACGAT-GGAAGGGGC
* *
3427406 CTCTTGAACAATGAAAGG
1 CTCTTGAACGATGGAAGG
3427424 TGAGTCGGGC
Statistics
Matches: 86, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
20 5 0.06
21 78 0.91
22 2 0.02
23 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.35, T:0.20
Consensus pattern (21 bp):
CTCTTGAACGATGGAAGGGGC
Found at i:3427367 original size:42 final size:41
Alignment explanation
Indices: 3427301--3427419 Score: 157
Period size: 42 Copynumber: 2.8 Consensus size: 41
3427291 GTGAATCGGG
* *
3427301 CTCTTGAACGGTGGAAGGGACCTCTTGAACGATGAGAGGGAC
1 CTCTTGAAC-GTGGGAGGGGCCTCTTGAACGATGAGAGGGAC
* *
3427343 CTCTTGAACAGTGGGAGGGGCCTCTTAAACGATGAGAGGGGC
1 CTCTTGAAC-GTGGGAGGGGCCTCTTGAACGATGAGAGGGAC
* *
3427385 CTCTTGAACGATAGGAGGGGCCTCTTGAACAATGA
1 CTCTTGAACG-TGGGAGGGGCCTCTTGAACGATGA
3427420 AAGGTGAGTC
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 1 0.01
42 67 0.99
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.20
Consensus pattern (41 bp):
CTCTTGAACGTGGGAGGGGCCTCTTGAACGATGAGAGGGAC
Found at i:3427817 original size:63 final size:63
Alignment explanation
Indices: 3427750--3427871 Score: 156
Period size: 63 Copynumber: 1.9 Consensus size: 63
3427740 ACCACGTAAA
* * *
3427750 GCACCATTGTCATCGCGTAAAACATCTACCTCACCACGTAAAG-ACCGTACCTCATCACGCCAT
1 GCACCATTGTCATCACGTAAAACACCGACCTCACCACGTAAAGCACCG-ACCTCATCACGCCAT
* ** * *
3427813 GCACCATTGTCGTCACGTAAAGTACCGACCTCATCACGTAAAGCACTGACCTCATCACG
1 GCACCATTGTCATCACGTAAAACACCGACCTCACCACGTAAAGCACCGACCTCATCACG
3427872 TAAATCCCCT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
63 47 0.94
64 3 0.06
ACGTcount: A:0.30, C:0.35, G:0.15, T:0.20
Consensus pattern (63 bp):
GCACCATTGTCATCACGTAAAACACCGACCTCACCACGTAAAGCACCGACCTCATCACGCCAT
Found at i:3427849 original size:21 final size:21
Alignment explanation
Indices: 3427735--3427875 Score: 90
Period size: 21 Copynumber: 6.7 Consensus size: 21
3427725 TAAAGTAGAT
*
3427735 ACCTCACCACGTAAAGCACC-
1 ACCTCATCACGTAAAGCACCG
** * * * *
3427755 ATTGTCATCGCGTAAAACATCT
1 A-CCTCATCACGTAAAGCACCG
*
3427777 ACCTCACCACGTAAAG-ACCG
1 ACCTCATCACGTAAAGCACCG
** *
3427797 TACCTCATCACGCCATGCACC-
1 -ACCTCATCACGTAAAGCACCG
** * *
3427818 ATTGTCGTCACGTAAAGTACCG
1 A-CCTCATCACGTAAAGCACCG
*
3427840 ACCTCATCACGTAAAGCACTG
1 ACCTCATCACGTAAAGCACCG
3427861 ACCTCATCACGTAAA
1 ACCTCATCACGTAAA
3427876 TCCCCTAACT
Statistics
Matches: 86, Mismatches: 29, Indels: 11
0.68 0.23 0.09
Matches are distributed among these distances:
20 4 0.05
21 77 0.90
22 5 0.06
ACGTcount: A:0.32, C:0.35, G:0.13, T:0.20
Consensus pattern (21 bp):
ACCTCATCACGTAAAGCACCG
Found at i:3429605 original size:19 final size:19
Alignment explanation
Indices: 3429570--3429622 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
3429560 AGTAGTTTAT
* *
3429570 GAAACTTAAATTCGCAACGT
1 GAAAC-TAAAATCGCAACGC
3429590 GAAA-TGAAAATCGCAACGC
1 GAAACT-AAAATCGCAACGC
3429609 GAAACTAAAATCGC
1 GAAACTAAAATCGC
3429623 GTTGCGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 1 0.03
19 23 0.79
20 5 0.17
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.17
Consensus pattern (19 bp):
GAAACTAAAATCGCAACGC
Found at i:3429905 original size:20 final size:20
Alignment explanation
Indices: 3429875--3429923 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
3429865 TCGAATTTGT
* *
3429875 AATTCGTAACACATAAGTCA
1 AATTCGCAACACAGAAGTCA
* *
3429895 ATTTCGCAACACAGAAGTTA
1 AATTCGCAACACAGAAGTCA
3429915 AATTCGCAA
1 AATTCGCAA
3429924 AGCACGTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.24
Consensus pattern (20 bp):
AATTCGCAACACAGAAGTCA
Found at i:3430515 original size:20 final size:20
Alignment explanation
Indices: 3430490--3430544 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
3430480 AAATTGCAAC
**
3430490 TCGCGTTGTGATTTTCATTT
1 TCGCGTTGCAATTTTCATTT
3430510 TCGCGTTGCAATTTTCATTT
1 TCGCGTTGCAATTTTCATTT
3430530 TCGCGTTGCGAATTT
1 TCGCGTTGC-AATTT
3430545 AAGTTTCAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 27 0.84
21 5 0.16
ACGTcount: A:0.13, C:0.18, G:0.20, T:0.49
Consensus pattern (20 bp):
TCGCGTTGCAATTTTCATTT
Found at i:3430551 original size:20 final size:20
Alignment explanation
Indices: 3430508--3430551 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
3430498 TGATTTTCAT
* *
3430508 TTTCGCGTTGCAATTTTCAT
1 TTTCGCGTTGCAATTTTAAG
3430528 TTTCGCGTTGCGAA-TTTAAG
1 TTTCGCGTTGC-AATTTTAAG
3430548 TTTC
1 TTTC
3430552 AGAAACTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.48
Consensus pattern (20 bp):
TTTCGCGTTGCAATTTTAAG
Found at i:3432208 original size:21 final size:21
Alignment explanation
Indices: 3432181--3432233 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
3432171 GTTAGGGGAG
* *
3432181 TTACGTGATGAGGTCAGTGCT
1 TTACGTGATGAAGTCAGTACT
* *
3432202 TTGCGTGATGAAGTTAGTACT
1 TTACGTGATGAAGTCAGTACT
3432223 TTACGTGATGA
1 TTACGTGATGA
3432234 CAATGGTGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.11, G:0.30, T:0.36
Consensus pattern (21 bp):
TTACGTGATGAAGTCAGTACT
Found at i:3432353 original size:21 final size:21
Alignment explanation
Indices: 3432303--3432356 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
3432293 ATGACAATGG
* *
3432303 TGCTTTACGTGGTGAGGTATC
1 TGCTTTACGTGATGAGGTAGC
*
3432324 TACTTTACGTGATGAGGTAGC
1 TGCTTTACGTGATGAGGTAGC
*
3432345 TGCTCTACGTGA
1 TGCTTTACGTGA
3432357 GATTGTTTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.19, C:0.17, G:0.30, T:0.35
Consensus pattern (21 bp):
TGCTTTACGTGATGAGGTAGC
Found at i:3432462 original size:4 final size:4
Alignment explanation
Indices: 3432453--3432494 Score: 66
Period size: 4 Copynumber: 10.5 Consensus size: 4
3432443 TTTTTCAGCA
* *
3432453 TTAT TTAT TTAT TTAT TTAT TTAT TTAT GTAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
3432495 TTAGCGGCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:3432670 original size:21 final size:21
Alignment explanation
Indices: 3432637--3432734 Score: 115
Period size: 21 Copynumber: 4.7 Consensus size: 21
3432627 GATTCACCTG
* *
3432637 TCATCATTCAAGAGGCCTCTC
1 TCATCGTTCAAGAGGCCCCTC
*
3432658 TCATCGTTTAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* *
3432679 CCACCGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
*
3432700 TCATCGTTCAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * *
3432721 CCACCGTTTAAGAG
1 TCATCGTTCAAGAG
3432735 CCCGATTCAC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.21, C:0.36, G:0.18, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:3432702 original size:42 final size:42
Alignment explanation
Indices: 3432643--3432734 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
3432633 CCTGTCATCA
* *
3432643 TTCAAGAGGCCTCTCTCATCGTTTAAGAGGCCCCTCCCACCG
1 TTCAAGAGGCCCCTCTCATCGTTCAAGAGGCCCCTCCCACCG
*
3432685 TTCAAGAGGCCCCTCTCATCGTTCAAGAGGTCCCTCCCACCG
1 TTCAAGAGGCCCCTCTCATCGTTCAAGAGGCCCCTCCCACCG
*
3432727 TTTAAGAG
1 TTCAAGAG
3432735 CCCGATTCAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.24
Consensus pattern (42 bp):
TTCAAGAGGCCCCTCTCATCGTTCAAGAGGCCCCTCCCACCG
Found at i:3434282 original size:18 final size:18
Alignment explanation
Indices: 3434259--3434294 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3434249 AAGCCAGTTG
*
3434259 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
*
3434277 TGATTGCGCTTTTGATTT
1 TGATTGCGATTTTGATTT
3434295 CCTTTTGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.06, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:3437332 original size:16 final size:16
Alignment explanation
Indices: 3437310--3437349 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
3437300 GAAATCATTG
*
3437310 AAAAATTATATAGAAA
1 AAAAATTATATAAAAA
* *
3437326 TAAAATTATGTAAAAA
1 AAAAATTATATAAAAA
3437342 AAAAATTA
1 AAAAATTA
3437350 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (16 bp):
AAAAATTATATAAAAA
Found at i:3437563 original size:40 final size:40
Alignment explanation
Indices: 3437508--3437634 Score: 110
Period size: 40 Copynumber: 3.2 Consensus size: 40
3437498 ATAAAAGTTA
** *
3437508 TTGCGAAATTAAAATTTGTGTTGCGAATTCGAAAATCGAG
1 TTGCGAAAACAAAATTTGTGTTGCGAATTAGAAAATCGAG
** * **
3437548 TTGCGAAAACAAAATTCATGTTGCGATTTAGAAAATCTTG
1 TTGCGAAAACAAAATTTGTGTTGCGAATTAGAAAATCGAG
* ** * ** * *
3437588 CTGCGAAAAGGAAACTTGTGTTGCGAAAAAGAAATTCGCG
1 TTGCGAAAACAAAATTTGTGTTGCGAATTAGAAAATCGAG
3437628 TTGCGAA
1 TTGCGAA
3437635 TTCATAAATC
Statistics
Matches: 66, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (40 bp):
TTGCGAAAACAAAATTTGTGTTGCGAATTAGAAAATCGAG
Found at i:3437612 original size:20 final size:20
Alignment explanation
Indices: 3437589--3437634 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
3437579 AAAATCTTGC
* *
3437589 TGCGAAAAGGAAACTT-GTGT
1 TGCGAAAAAGAAA-TTCGCGT
3437609 TGCGAAAAAGAAATTCGCGT
1 TGCGAAAAAGAAATTCGCGT
3437629 TGCGAA
1 TGCGAA
3437635 TTCATAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.22
Consensus pattern (20 bp):
TGCGAAAAAGAAATTCGCGT
Found at i:3437650 original size:20 final size:21
Alignment explanation
Indices: 3437627--3437696 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 21
3437617 AGAAATTCGC
*
3437627 GTTGCGAATT-CATAAA-TCGA
1 GTTGCGAATTGCAAAAACT-GA
3437647 GTTGCG-ATTGCAAAAACTGA
1 GTTGCGAATTGCAAAAACTGA
*
3437667 GTTGCGAATTTG--AAAACTGT
1 GTTGCGAA-TTGCAAAAACTGA
3437687 GTTGCGAATT
1 GTTGCGAATT
3437697 TGGAGTTCGC
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
19 5 0.11
20 34 0.77
21 2 0.05
22 3 0.07
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.31
Consensus pattern (21 bp):
GTTGCGAATTGCAAAAACTGA
Found at i:3437697 original size:20 final size:20
Alignment explanation
Indices: 3437659--3437698 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
3437649 TGCGATTGCA
3437659 AAAACTGAGTTGCGAATTTG
1 AAAACTGAGTTGCGAATTTG
*
3437679 AAAACTGTGTTGCGAATTTG
1 AAAACTGAGTTGCGAATTTG
3437699 GAGTTCGCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.33
Consensus pattern (20 bp):
AAAACTGAGTTGCGAATTTG
Found at i:3437710 original size:20 final size:20
Alignment explanation
Indices: 3437687--3437737 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
3437677 TGAAAACTGT
3437687 GTTGCGAATTTGGAGT-TCGC
1 GTTGCGAATTTGGA-TATCGC
*
3437707 GTTGCG-ATTTCGATATCGC
1 GTTGCGAATTTGGATATCGC
3437726 GTTGCGAATTTG
1 GTTGCGAATTTG
3437738 TTGGTCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 1 0.04
19 16 0.59
20 10 0.37
ACGTcount: A:0.16, C:0.16, G:0.31, T:0.37
Consensus pattern (20 bp):
GTTGCGAATTTGGATATCGC
Found at i:3438093 original size:39 final size:39
Alignment explanation
Indices: 3438019--3438094 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 39
3438009 TTGAGAATAT
* *
3438019 AGGGAAATTGAGAATTTAGAGGGAAATTGAGAAATTTAA
1 AGGGAAATTGAGAATTTAGAGGGAAATAGAAAAATTTAA
3438058 AGGGAAATTGAGAAATTTAGAGGG-AATAGAAAAATTT
1 AGGGAAATTGAG-AATTTAGAGGGAAATAGAAAAATTT
3438095 GGGAAGTTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 23 0.68
40 11 0.32
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (39 bp):
AGGGAAATTGAGAATTTAGAGGGAAATAGAAAAATTTAA
Found at i:3438094 original size:19 final size:20
Alignment explanation
Indices: 3438019--3438083 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
3438009 TTGAGAATAT
3438019 AGGGAAATTGAG-AATTTAG
1 AGGGAAATTGAGAAATTTAG
*
3438038 AGGGAAATTGAGAAATTTAA
1 AGGGAAATTGAGAAATTTAG
3438058 AGGGAAATTGAGAAATTTAG
1 AGGGAAATTGAGAAATTTAG
3438078 AGGGAA
1 AGGGAA
3438084 TAGAAAAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
19 12 0.28
20 31 0.72
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (20 bp):
AGGGAAATTGAGAAATTTAG
Found at i:3438306 original size:18 final size:18
Alignment explanation
Indices: 3438283--3438323 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
3438273 ATGCATATAC
3438283 TATATAAA-GTATATAGTT
1 TATATAAACG-ATATAGTT
*
3438301 TATATAAACGGTATAGTT
1 TATATAAACGATATAGTT
3438319 TATAT
1 TATAT
3438324 TTATATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.44
Consensus pattern (18 bp):
TATATAAACGATATAGTT
Found at i:3441738 original size:213 final size:213
Alignment explanation
Indices: 3441371--3441799 Score: 768
Period size: 213 Copynumber: 2.0 Consensus size: 213
3441361 TCGCCAATCC
* *
3441371 GTATGTCCTTGGCTTGCCAACAAAGGCACATGATCAAACATCGACATGTCCTGATCAGCCGTCTT
1 GTATGTCCTTGGCTTGCCAACAAAGGCACACGACCAAACATCGACATGTCCTGATCAGCCGTCTT
* *
3441436 CATCAGGCCACTTTCTTCATCTGTTTCTTCCAACTGAAATGCTTGCTCAAACGACTCCAACGAAT
66 CATCAGGCCACTTTCTTCATCTATTTCTTCCAACTGAAATGCTTGCTCAAAAGACTCCAACGAAT
3441501 CCAAAGATGTCGTGGTGATAGCAGGGGCAGCTATTTCAATGTTTTCCATGACGGGAACCTTTTCG
131 CCAAAGATGTCGTGGTGATAGCAGGGGCAGCTATTTCAATGTTTTCCATGACGGGAACCTTTTCG
* *
3441566 ACTTCTATGGGTATATCA
196 ACCTCTATAGGTATATCA
* *
3441584 GTATGTCCTTGGCTTGTCAACAAAGGCACACGACCAAACATTGACATGTCCTGATCAGCCGTCTT
1 GTATGTCCTTGGCTTGCCAACAAAGGCACACGACCAAACATCGACATGTCCTGATCAGCCGTCTT
3441649 CATCAGGCCACTTTCTTCATCTATTTCTTCCAACTGAAATGCTTGCTCAAAAGACTCCAACGAAT
66 CATCAGGCCACTTTCTTCATCTATTTCTTCCAACTGAAATGCTTGCTCAAAAGACTCCAACGAAT
**
3441714 CCAAAGATGTCGTGGTGATAGCAGGGGCAGCTATTTTGATGTTTTCCATGACGGGAACCTTTTCG
131 CCAAAGATGTCGTGGTGATAGCAGGGGCAGCTATTTCAATGTTTTCCATGACGGGAACCTTTTCG
3441779 ACCTCTATAGGTATATCA
196 ACCTCTATAGGTATATCA
3441797 GTA
1 GTA
3441800 ATTTGGCTCT
Statistics
Matches: 206, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
213 206 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (213 bp):
GTATGTCCTTGGCTTGCCAACAAAGGCACACGACCAAACATCGACATGTCCTGATCAGCCGTCTT
CATCAGGCCACTTTCTTCATCTATTTCTTCCAACTGAAATGCTTGCTCAAAAGACTCCAACGAAT
CCAAAGATGTCGTGGTGATAGCAGGGGCAGCTATTTCAATGTTTTCCATGACGGGAACCTTTTCG
ACCTCTATAGGTATATCA
Found at i:3442156 original size:7 final size:7
Alignment explanation
Indices: 3442139--3442170 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
3442129 TCCCTTACCA
3442139 ACCAA-G
1 ACCAATG
3442145 ACCAATG
1 ACCAATG
3442152 ACCAATG
1 ACCAATG
3442159 ACCAATG
1 ACCAATG
3442166 ACCAA
1 ACCAA
3442171 ACCTTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.47, C:0.31, G:0.12, T:0.09
Consensus pattern (7 bp):
ACCAATG
Found at i:3442955 original size:22 final size:23
Alignment explanation
Indices: 3442930--3442973 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
3442920 AAAACTGCCA
*
3442930 AAAGATAGAGATAAA-ATGTCAC
1 AAAGACAGAGATAAACATGTCAC
*
3442952 AAAGACATAGATAAACATGTCA
1 AAAGACAGAGATAAACATGTCA
3442974 TAACGATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.55, C:0.11, G:0.16, T:0.18
Consensus pattern (23 bp):
AAAGACAGAGATAAACATGTCAC
Found at i:3443778 original size:27 final size:27
Alignment explanation
Indices: 3443738--3443790 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
3443728 AATTTAACTT
* * * *
3443738 TAAAATTAATTAAAATGTCTAATTAAA
1 TAAAAATAAATAAAATATCAAATTAAA
3443765 TAAAAATAAATAAAATATCAAATTAA
1 TAAAAATAAATAAAATATCAAATTAA
3443791 GCTCTAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (27 bp):
TAAAAATAAATAAAATATCAAATTAAA
Found at i:3444705 original size:19 final size:19
Alignment explanation
Indices: 3444681--3444718 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
3444671 AGTCAAGCCC
3444681 AAGCTTCAAAACCTTTCCA
1 AAGCTTCAAAACCTTTCCA
3444700 AAGCTTCAAAACCTTTCCA
1 AAGCTTCAAAACCTTTCCA
3444719 TGAACCTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.32, G:0.05, T:0.26
Consensus pattern (19 bp):
AAGCTTCAAAACCTTTCCA
Found at i:3445101 original size:10 final size:10
Alignment explanation
Indices: 3445086--3445112 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
3445076 AAAGATGGGC
3445086 GAGCTTGGAG
1 GAGCTTGGAG
3445096 GAGCTTGGAG
1 GAGCTTGGAG
3445106 GAGCTTG
1 GAGCTTG
3445113 TATGGAGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.48, T:0.22
Consensus pattern (10 bp):
GAGCTTGGAG
Found at i:3464375 original size:20 final size:20
Alignment explanation
Indices: 3464307--3464382 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 20
3464297 AGAATCAGCT
3464307 AGGAA-GTATCGATACTGATG
1 AGGAAGGTATCGATACT-ATG
* *
3464327 CAAG-AGGTATCAATACTA-G
1 -AGGAAGGTATCGATACTATG
* *
3464346 ATGAGTGGTATCGATACTATG
1 AGGA-AGGTATCGATACTATG
3464367 AGGAAGGTATCGATAC
1 AGGAAGGTATCGATAC
3464383 CATTGTTAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
18 2 0.05
19 1 0.02
20 25 0.57
21 16 0.36
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.25
Consensus pattern (20 bp):
AGGAAGGTATCGATACTATG
Found at i:3464887 original size:55 final size:55
Alignment explanation
Indices: 3464844--3465234 Score: 613
Period size: 55 Copynumber: 7.1 Consensus size: 55
3464834 TAATTTGTTT
*
3464844 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAATTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
* * **
3464899 ATAAATTTCTGTATGGATACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
* * * *
3464954 ATGAATTTACGTATGGGCATTTTATATGT-AACTTAAGAAATTCATACTAAGTGA
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
*
3465008 ATGAATTTCCATATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
* *
3465063 ATGAATTTCCGTATGGGCACTTTATTTGTAAACTTAAGAAATTCATACTAAGTGA
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
** * * *
3465118 ATGAATTTATGTATGGACACTTTACGTGTAAACTTAAGAAATTCATATTAAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
*
3465173 ATGAATTTCCGTATGGGCACTTTATTTGTAAACTTAAGAAATTCATACTAAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
3465228 ATGAATT
1 ATGAATT
3465235 CCCATATTGG
Statistics
Matches: 301, Mismatches: 34, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
54 49 0.16
55 252 0.84
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (55 bp):
ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
Found at i:3464947 original size:28 final size:28
Alignment explanation
Indices: 3464862--3464947 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 28
3464852 CCGTATGGGC
3464862 ACTTTATGTGTAAACTTAAGAAATTCAT
1 ACTTTATGTGTAAACTTAAGAAATTCAT
* * ** * **
3464890 AC-TAAT-TGGATAAATTTCTG-TATGGAT
1 ACTTTATGT-G-TAAACTTAAGAAATTCAT
3464917 ACTTTATGTGTAAACTTAAGAAATTCAT
1 ACTTTATGTGTAAACTTAAGAAATTCAT
3464945 ACT
1 ACT
3464948 AAGTGGATGA
Statistics
Matches: 39, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
26 1 0.03
27 17 0.44
28 20 0.51
29 1 0.03
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (28 bp):
ACTTTATGTGTAAACTTAAGAAATTCAT
Found at i:3471407 original size:20 final size:20
Alignment explanation
Indices: 3471343--3471412 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
3471333 CAATTAGGAA
3471343 GTATCGATACTGATGCAAG-AG
1 GTATCGATACT-ATG-AAGAAG
* **
3471364 GTATCGATTCTA-GAAGTGG
1 GTATCGATACTATGAAGAAG
*
3471383 GTATCGATACTATGAGGAAG
1 GTATCGATACTATGAAGAAG
3471403 GTATCGATAC
1 GTATCGATAC
3471413 CATTGTTAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
18 3 0.07
19 13 0.32
20 15 0.37
21 10 0.24
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (20 bp):
GTATCGATACTATGAAGAAG
Found at i:3472376 original size:55 final size:55
Alignment explanation
Indices: 3471874--3472359 Score: 785
Period size: 55 Copynumber: 8.8 Consensus size: 55
3471864 TAATTTGTTT
*
3471874 ATGAATTTCCATATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
* *
3471929 AGGAATTTTCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
*
3471984 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGA
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
* * *
3472039 ATGAATTTCCGTATAGGCACTTTATTTGTGAACTTAAGAAATTCATACTAAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
*
3472094 ATGAATTTTCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
* *
3472149 ATGAATTTCCCTATGAGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
** * * *
3472204 ATGAATTTTTGTATAGGCACTTTACGTGTAAACTTAAGAAATTAATACTAAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
*
3472259 ATGATTTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
1 ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
* * *
3472314 ATGAATTTCTGTATGGGCACTTTATGTGCAAAAC-TAGGAAATTCAT
1 ATGAATTTCCGTATGGGCACTTTATGTG-TAAACTTAAGAAATTCAT
3472360 GCTATGTATA
Statistics
Matches: 396, Mismatches: 34, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
55 392 0.99
56 4 0.01
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (55 bp):
ATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
Found at i:3472824 original size:27 final size:26
Alignment explanation
Indices: 3472784--3472834 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 26
3472774 TTTTGTTTAC
*
3472784 TTACGTAAGTTTAATTAATGTTTTATTA
1 TTACGTAAATTTAA-T-ATGTTTTATTA
3472812 TTAC-TAAATTTAATATGTTTTAT
1 TTACGTAAATTTAATATGTTTTAT
3472835 AAAAAGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 9 0.41
26 1 0.05
27 8 0.36
28 4 0.18
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (26 bp):
TTACGTAAATTTAATATGTTTTATTA
Found at i:3473610 original size:23 final size:23
Alignment explanation
Indices: 3473566--3473612 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
3473556 CCTGAGAGCT
* **
3473566 TACCCAAGAAAGTTATTGGGGCC
1 TACCCAAGAAAGATATCAGGGCC
3473589 TACCCAAGAAAGATATCAGGGCC
1 TACCCAAGAAAGATATCAGGGCC
3473612 T
1 T
3473613 CAGAGCCTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.19
Consensus pattern (23 bp):
TACCCAAGAAAGATATCAGGGCC
Found at i:3479897 original size:22 final size:22
Alignment explanation
Indices: 3479872--3479959 Score: 97
Period size: 22 Copynumber: 4.0 Consensus size: 22
3479862 AATTGTTGTA
*
3479872 AGGTCATACCATTGACTTTGAC
1 AGGTCAGACCATTGACTTTGAC
*
3479894 AGGTCAGACTATTGACTTTGATC
1 AGGTCAGACCATTGACTTTGA-C
* * *
3479917 A-GTAAGATCGTTGACTTTGAC
1 AGGTCAGACCATTGACTTTGAC
* *
3479938 ATGTCAGACCGTTGACTTTGAC
1 AGGTCAGACCATTGACTTTGAC
3479960 CGATCTGGCT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
21 2 0.04
22 52 0.93
23 2 0.04
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (22 bp):
AGGTCAGACCATTGACTTTGAC
Found at i:3480736 original size:23 final size:23
Alignment explanation
Indices: 3480706--3480752 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
3480696 GTAGGCTCTA
*
3480706 AGGCCCCGAGATCTTTCTTGGGT
1 AGGCCCCGAGAACTTTCTTGGGT
3480729 AGGCCCCGAGAACTTTCTTGGGT
1 AGGCCCCGAGAACTTTCTTGGGT
3480752 A
1 A
3480753 AGCTCTCAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.26, G:0.30, T:0.28
Consensus pattern (23 bp):
AGGCCCCGAGAACTTTCTTGGGT
Found at i:3481620 original size:15 final size:16
Alignment explanation
Indices: 3481582--3481622 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
3481572 CCAGAGCCTC
*
3481582 TGAATCATTCAGCATT
1 TGAATCATTCAGCACT
*
3481598 TGAATCATTCAGTACT
1 TGAATCATTCAGCACT
3481614 T-AATCATTC
1 TGAATCATTC
3481623 TGAAGTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.39
Consensus pattern (16 bp):
TGAATCATTCAGCACT
Found at i:3481733 original size:24 final size:24
Alignment explanation
Indices: 3481705--3481761 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
3481695 TAACATGCAA
3481705 AAGAGGATGAACAAGATGAAGAAG
1 AAGAGGATGAACAAGATGAAGAAG
* * *
3481729 TAGAGGATGAGCAAGTTGAAGAAG
1 AAGAGGATGAACAAGATGAAGAAG
*
3481753 AAGAAGATG
1 AAGAGGATG
3481762 TAGTAGAAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.35, T:0.12
Consensus pattern (24 bp):
AAGAGGATGAACAAGATGAAGAAG
Done.