Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001444.1 Hibiscus syriacus cultivar Beakdansim tig00002793_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: 2564052
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 12
Found at i:1517201 original size:13 final size:14
Alignment explanation
Indices: 1517172--1517205 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
1517162 TACTAATAAA
*
1517172 AATAAATCTATTAT
1 AATAAATCTAATAT
1517186 AATAAAT-TAATAT
1 AATAAATCTAATAT
1517199 AATAAAT
1 AATAAAT
1517206 ATTATGCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATCTAATAT
Found at i:1517320 original size:18 final size:18
Alignment explanation
Indices: 1517272--1517313 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
1517262 AATAAATAAT
1517272 TAATATATAAT-TATTTTTA
1 TAAT-TATAATAT-TTTTTA
1517291 TAATTATAATATTTTTTA
1 TAATTATAATATTTTTTA
1517309 TAATT
1 TAATT
1517314 GAAATATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TAATTATAATATTTTTTA
Found at i:1524458 original size:15 final size:15
Alignment explanation
Indices: 1524426--1524473 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
1524416 ATTCGATCCA
*
1524426 AATAACACATATTCG
1 AATAACATATATTCG
1524441 AATAACATATACTT-G
1 AATAACATATA-TTCG
* *
1524456 AATATCATATATCCG
1 AATAACATATATTCG
1524471 AAT
1 AAT
1524474 TTCGATTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 1 0.04
15 25 0.89
16 2 0.07
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (15 bp):
AATAACATATATTCG
Found at i:1531248 original size:30 final size:30
Alignment explanation
Indices: 1531213--1531277 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
1531203 TGGAGCTTGT
* *
1531213 GGTGTTGAAGCTGCTGGTGTAAAACCAGAG
1 GGTGTTAAAGCTGCTGGTATAAAACCAGAG
* * * *
1531243 GGTGTTAAAGTTTCTGGTATATAATCAGAG
1 GGTGTTAAAGCTGCTGGTATAAAACCAGAG
1531273 GGTGT
1 GGTGT
1531278 AGATGATATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.09, G:0.34, T:0.31
Consensus pattern (30 bp):
GGTGTTAAAGCTGCTGGTATAAAACCAGAG
Found at i:1532450 original size:32 final size:32
Alignment explanation
Indices: 1532404--1532472 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
1532394 CATTGTAACT
* *
1532404 GTTGGGCACCTATATGGAAATAAGTCTTAAAG
1 GTTGGGCACATATATGGAAATAAATCTTAAAG
1532436 GTTGGGCACATATATGGAAATAAATCTTAAAG
1 GTTGGGCACATATATGGAAATAAATCTTAAAG
1532468 GTTGG
1 GTTGG
1532473 ACACCAAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (32 bp):
GTTGGGCACATATATGGAAATAAATCTTAAAG
Found at i:1554429 original size:22 final size:21
Alignment explanation
Indices: 1554395--1554435 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
1554385 ATAATTATTT
1554395 AAAAAATTAAATAAAAATACC
1 AAAAAATTAAATAAAAATACC
*
1554416 AAAAATATTTAATAAAAATA
1 AAAAA-ATTAAATAAAAATA
1554436 ATTTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATACC
Found at i:1555384 original size:31 final size:31
Alignment explanation
Indices: 1555343--1555422 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
1555333 AGTTGGGCAG
* *
1555343 TGCTCAACTCGTACTTGTTAAAATATTTTAT
1 TGCTCAACTCGTACTCGTTAAAATAATTTAT
* * *
1555374 TGCTCGACTCGTGCTCGTTAAAATAATTTGT
1 TGCTCAACTCGTACTCGTTAAAATAATTTAT
*
1555405 TGCTTAACTCG-ACTCGTT
1 TGCTCAACTCGTACTCGTT
1555423 CCTAGTTAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 6 0.15
31 35 0.85
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (31 bp):
TGCTCAACTCGTACTCGTTAAAATAATTTAT
Found at i:1556228 original size:30 final size:31
Alignment explanation
Indices: 1556192--1556261 Score: 133
Period size: 30 Copynumber: 2.3 Consensus size: 31
1556182 AAGAGTCGAT
1556192 ACAAATTAATAATGCAACAA-TTTTTAAGTG
1 ACAAATTAATAATGCAACAATTTTTTAAGTG
1556222 ACAAATTAATAATGCAACAATTTTTTAAGTG
1 ACAAATTAATAATGCAACAATTTTTTAAGTG
1556253 ACAAATTAA
1 ACAAATTAA
1556262 CAATTTATCA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
30 20 0.51
31 19 0.49
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.33
Consensus pattern (31 bp):
ACAAATTAATAATGCAACAATTTTTTAAGTG
Found at i:1556562 original size:30 final size:30
Alignment explanation
Indices: 1556528--1556589 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
1556518 CATAGATGTT
1556528 ATGTCATCGAGCTACTAACGAAGAAGTGGC
1 ATGTCATCGAGCTACTAACGAAGAAGTGGC
*
1556558 ATGTCATCGAGCTACTAATGAAGAAGTGGC
1 ATGTCATCGAGCTACTAACGAAGAAGTGGC
1556588 AT
1 AT
1556590 ATTTGTTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.23
Consensus pattern (30 bp):
ATGTCATCGAGCTACTAACGAAGAAGTGGC
Found at i:1556866 original size:27 final size:27
Alignment explanation
Indices: 1556828--1556885 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
1556818 CATATATAGT
1556828 CAACTCCCCAATGAGAGCTAGAACAAC
1 CAACTCCCCAATGAGAGCTAGAACAAC
1556855 CAACTCCCCAATGAGAGCTAGAACAAC
1 CAACTCCCCAATGAGAGCTAGAACAAC
1556882 CAAC
1 CAAC
1556886 AACAAAGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.41, C:0.34, G:0.14, T:0.10
Consensus pattern (27 bp):
CAACTCCCCAATGAGAGCTAGAACAAC
Found at i:1561996 original size:48 final size:48
Alignment explanation
Indices: 1561925--1562065 Score: 228
Period size: 48 Copynumber: 2.9 Consensus size: 48
1561915 TTTAAAGTGT
1561925 ATGTTTTGACTTTTGTGAATTAGGGTTTATTTAAAACTATGATGCTAC
1 ATGTTTTGACTTTTGTGAATTAGGGTTTATTTAAAACTATGATGCTAC
* * *
1561973 ATGTTTTGACTTTTGTGAATTAGGGTTTATTTAAAATTATAATGCTAT
1 ATGTTTTGACTTTTGTGAATTAGGGTTTATTTAAAACTATGATGCTAC
* * *
1562021 ATGTTTTGATTTTTGTGATTTAGGGTTTATTTAAAACTTTGATGC
1 ATGTTTTGACTTTTGTGAATTAGGGTTTATTTAAAACTATGATGC
1562066 ATTTAATTAT
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.26, C:0.06, G:0.18, T:0.50
Consensus pattern (48 bp):
ATGTTTTGACTTTTGTGAATTAGGGTTTATTTAAAACTATGATGCTAC
Found at i:1564229 original size:20 final size:20
Alignment explanation
Indices: 1564204--1564267 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
1564194 CAAGTCCCTG
1564204 AGTATTGATACCACATGAGC
1 AGTATTGATACCACATGAGC
1564224 AGTATTGATACCACATGAGC
1 AGTATTGATACCACATGAGC
* *
1564244 AATATTGATACCACATGGGC
1 AGTATTGATACCACATGAGC
1564264 AGTA
1 AGTA
1564268 CTATTTCTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (20 bp):
AGTATTGATACCACATGAGC
Found at i:1564966 original size:24 final size:24
Alignment explanation
Indices: 1564939--1564992 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
1564929 GAAAATGGAA
1564939 GAAGAAGAAGAAAATGGATATGGT
1 GAAGAAGAAGAAAATGGATATGGT
1564963 GAAGAAGAAGAAAATGGATATGGT
1 GAAGAAGAAGAAAATGGATATGGT
1564987 GAAGAA
1 GAAGAA
1564993 AAATATAGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.52, C:0.00, G:0.33, T:0.15
Consensus pattern (24 bp):
GAAGAAGAAGAAAATGGATATGGT
Found at i:1565332 original size:3 final size:3
Alignment explanation
Indices: 1565324--1565414 Score: 175
Period size: 3 Copynumber: 30.7 Consensus size: 3
1565314 TTATTAACGG
1565324 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1565371 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1565415 TGGTGTTGTT
Statistics
Matches: 87, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 85 0.98
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1568716 original size:143 final size:142
Alignment explanation
Indices: 1568523--1568781 Score: 366
Period size: 143 Copynumber: 1.8 Consensus size: 142
1568513 AAAATAATCA
* *
1568523 TATTTTAATATTTATTTTTTAATATTAAGAAATGGACTGTCTTAAAGCACCTAAAAG-TCTTTTT
1 TATTTTAATATTTATTTATT-ATATTAAGAAAAGGACTGTCTTAAAGCACCTAAAAGTTC-TTTT
*
1568587 CTGATATTCTTAAATAAATAAATATCATATT-TTTATAAATTATATATATATTAATTTATTTTAA
64 CTGATATTCTTAAATAAATAAATAT--T-TTATTTATAAA-TATATATAAATTAATTTATTTTAA
1568651 TTATTTTTAGAAAGATGT
125 TTATTTTTAGAAAGATGT
* *
1568669 TATTTTAATATTTATTTATT-T-TTAAGAAAA-GAGCTGTCTTAAGGCACCTAGAAGTTCTTTTC
1 TATTTTAATATTTATTTATTATATTAAGAAAAGGA-CTGTCTTAAAGCACCTAAAAGTTCTTTTC
*
1568731 TGATATTTTTAAATAAATAAATATTTTATTTATAAATATATATAAATTAAT
65 TGATATTCTTAAATAAATAAATATTTTATTTATAAATATATATAAATTAAT
1568782 AGATTTTCTT
Statistics
Matches: 104, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
140 16 0.15
141 9 0.09
142 2 0.02
143 55 0.53
144 3 0.03
146 19 0.18
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (142 bp):
TATTTTAATATTTATTTATTATATTAAGAAAAGGACTGTCTTAAAGCACCTAAAAGTTCTTTTCT
GATATTCTTAAATAAATAAATATTTTATTTATAAATATATATAAATTAATTTATTTTAATTATTT
TTAGAAAGATGT
Found at i:1570868 original size:8 final size:7
Alignment explanation
Indices: 1570848--1570886 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
1570838 CATACATACA
1570848 TTTGCAT
1 TTTGCAT
1570855 TTTGCAT
1 TTTGCAT
1570862 CTTTGCAT
1 -TTTGCAT
*
1570870 TTTTCATT
1 TTTGCA-T
1570878 TTTGCAT
1 TTTGCAT
1570885 TT
1 TT
1570887 ATACTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 15 0.54
8 13 0.46
ACGTcount: A:0.13, C:0.15, G:0.10, T:0.62
Consensus pattern (7 bp):
TTTGCAT
Found at i:1570868 original size:15 final size:15
Alignment explanation
Indices: 1570848--1570886 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
1570838 CATACATACA
1570848 TTTGCATTTTGCATC
1 TTTGCATTTTGCATC
* *
1570863 TTTGCATTTTTCATT
1 TTTGCATTTTGCATC
1570878 TTTGCATTT
1 TTTGCATTT
1570887 ATACTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.13, C:0.15, G:0.10, T:0.62
Consensus pattern (15 bp):
TTTGCATTTTGCATC
Found at i:1570982 original size:27 final size:27
Alignment explanation
Indices: 1570946--1571005 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
1570936 CATTCACATA
1570946 TTTACATTTGCATTTACATTTGCATTT
1 TTTACATTTGCATTTACATTTGCATTT
* * *
1570973 TTTACGTTTGTATTTACATTTTCA-TT
1 TTTACATTTGCATTTACATTTGCATTT
1570999 TTTACAT
1 TTTACAT
1571006 AATTACATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.13, G:0.07, T:0.58
Consensus pattern (27 bp):
TTTACATTTGCATTTACATTTGCATTT
Found at i:1570999 original size:12 final size:12
Alignment explanation
Indices: 1570945--1570972 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1570935 ACATTCACAT
1570945 ATTTACATTTGC
1 ATTTACATTTGC
1570957 ATTTACATTTGC
1 ATTTACATTTGC
1570969 ATTT
1 ATTT
1570973 TTTACGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (12 bp):
ATTTACATTTGC
Found at i:1573080 original size:2 final size:2
Alignment explanation
Indices: 1573073--1573104 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1573063 ATCCTTTTAA
1573073 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1573105 CCTTTGTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1573435 original size:10 final size:10
Alignment explanation
Indices: 1573420--1573475 Score: 59
Period size: 10 Copynumber: 6.1 Consensus size: 10
1573410 ATGAAAAAAG
*
1573420 AAAAAGGGAA
1 AAAAAGGAAA
1573430 AAAAAGGAAA
1 AAAAAGGAAA
1573440 AAAAA-G-AA
1 AAAAAGGAAA
*
1573448 AAAAA--AAG
1 AAAAAGGAAA
1573456 AAAAAGG-AA
1 AAAAAGGAAA
1573465 AAAAAGGAAA
1 AAAAAGGAAA
1573475 A
1 A
1573476 TTGAATCAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 13 0.33
9 9 0.23
10 17 0.44
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAAAGGAAA
Found at i:1573438 original size:9 final size:9
Alignment explanation
Indices: 1573420--1573475 Score: 71
Period size: 9 Copynumber: 6.3 Consensus size: 9
1573410 ATGAAAAAAG
*
1573420 AAAAAGGGA
1 AAAAAAGGA
1573429 AAAAAAGGA
1 AAAAAAGGA
*
1573438 AAAAAAAGA
1 AAAAAAGGA
1573447 AAAAAA--A
1 AAAAAAGGA
1573454 AGAAAAAGGA
1 A-AAAAAGGA
1573464 AAAAAAGGA
1 AAAAAAGGA
1573473 AAA
1 AAA
1573476 TTGAATCAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
7 2 0.05
8 5 0.12
9 33 0.79
10 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAAAAGGA
Found at i:1573443 original size:26 final size:26
Alignment explanation
Indices: 1573413--1573475 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
1573403 AAGAAGAATG
**
1573413 AAAAAAGAAAAAGGGAA-AAAAAGGAA
1 AAAAAAGAAAAA-AAAAGAAAAAGGAA
1573439 AAAAAAGAAAAAAAAAGAAAAAGGAA
1 AAAAAAGAAAAAAAAAGAAAAAGGAA
*
1573465 AAAAAGGAAAA
1 AAAAAAGAAAA
1573476 TTGAATCAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 2 0.06
26 31 0.94
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (26 bp):
AAAAAAGAAAAAAAAAGAAAAAGGAA
Found at i:1575952 original size:114 final size:114
Alignment explanation
Indices: 1575733--1575952 Score: 350
Period size: 114 Copynumber: 1.9 Consensus size: 114
1575723 CACGTTCTCG
* *
1575733 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGGTCTGATTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTC
* * * *
1575798 GGTATGAACCCCAAAATCAATCATTAGATTTAAAATATGAATTTGCTCA
66 GGTAGGAACCCCAAAACCAATCATTAGAATTAAAAGATGAATTTGCTCA
*
1575847 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTC
* * *
1575912 GGTAGGAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 GGTAGGAACCCCAAAACCAATCATTAGAATTAAAAGATGAA
1575953 CTGCATGATC
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 96 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTC
GGTAGGAACCCCAAAACCAATCATTAGAATTAAAAGATGAATTTGCTCA
Found at i:1578523 original size:22 final size:23
Alignment explanation
Indices: 1578472--1578527 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
1578462 ATCTACACTC
1578472 TTCAAAGATGATAGATTCTCTTT
1 TTCAAAGATGATAGATTCTCTTT
* *
1578495 TTTAAAGATGATAGATTTTC-TT
1 TTCAAAGATGATAGATTCTCTTT
1578517 TTCAAAGATGA
1 TTCAAAGATGA
1578528 AAGCTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (23 bp):
TTCAAAGATGATAGATTCTCTTT
Found at i:1579490 original size:76 final size:76
Alignment explanation
Indices: 1579364--1579594 Score: 417
Period size: 76 Copynumber: 3.0 Consensus size: 76
1579354 TATTTCCCAT
*
1579364 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1579429 GCCTTAGGGTC
66 GCCTTAGGGTC
1579440 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1579505 GCCTTAGGGTC
66 GCCTTAGGGTC
*
1579516 ATCTGTAAGTCCTACAGTGCATGATATTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
** *
1579581 ATCTTCGGGTC
66 GCCTTAGGGTC
1579592 ATC
1 ATC
1579595 AGCATTACCA
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 150 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (76 bp):
ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
GCCTTAGGGTC
Found at i:1579733 original size:113 final size:112
Alignment explanation
Indices: 1579610--1580201 Score: 672
Period size: 113 Copynumber: 5.2 Consensus size: 112
1579600 TACCAGGTAG
* *
1579610 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGGAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * *
1579675 AACCTTTTGCTCAAATCCATCACTTGATGGACCAGCATTTCCAGAGAA
66 AACCTTTTGCTCGAATTCATCA-TTGATGGATCAACATTTCCAGAGAA
* *
1579723 AGTTCATAATGAGAAGAACTTATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * *
1579787 AACCTTTTGCTCG-ACTCTATCGCAGAAAGAGATAGATCAGCATCAATATTTCCAGAAGGA
66 AACCTTTTGCTCGAATTC-AT--C--------ATTGAT--GGATCAACATTTCCAG-AGAA
* *
1579847 A-TTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAATAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
** * * *
1579911 AAATTTTTGCTCGAATTCATCATTCGATGGATCAGCATTGCCAG-GTAG
66 AACCTTTTGCTCGAATTCATCATT-GATGGATCAACATTTCCAGAG-AA
* *
1579959 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAACTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * *
1580024 AACTTTTTGCTCGAATTCATCATTCGATGGATCAATATTACCAG-GTAG
66 AACCTTTTGCTCGAATTCATCATT-GATGGATCAACATTTCCAGAG-AA
*
1580072 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * *
1580137 AACCTTTTACTCGAATTTATCACTCGATGGATCAACATTTTCAGAAAA
66 AACCTTTTGCTCGAATTCATCA-TTGATGGATCAACATTTCCAGAGAA
*
1580185 AGTTCATAATAAGAAGA
1 AGTTCATAATGAGAAGA
1580202 GCTTGTTCAA
Statistics
Matches: 414, Mismatches: 44, Indels: 42
0.83 0.09 0.08
Matches are distributed among these distances:
111 3 0.01
112 47 0.11
113 261 0.63
114 4 0.01
115 3 0.01
121 4 0.01
122 2 0.00
123 39 0.09
124 48 0.12
125 3 0.01
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (112 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGCTCGAATTCATCATTGATGGATCAACATTTCCAGAGAA
Found at i:1580703 original size:20 final size:20
Alignment explanation
Indices: 1580678--1580743 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
1580668 TCTGAAGAAG
*
1580678 GAAGAAGAAATTCATAATGA
1 GAAGAACAAATTCATAATGA
** *
1580698 GAAGAACTCA-TC-TAAAGAA
1 GAAGAACAAATTCATAATG-A
* *
1580717 GAAGAATAAGTTCATAATGA
1 GAAGAACAAATTCATAATGA
1580737 GAAGAAC
1 GAAGAAC
1580744 TCATCTTGAG
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
18 4 0.12
19 9 0.27
20 16 0.48
21 4 0.12
ACGTcount: A:0.53, C:0.09, G:0.20, T:0.18
Consensus pattern (20 bp):
GAAGAACAAATTCATAATGA
Found at i:1580721 original size:39 final size:39
Alignment explanation
Indices: 1580642--1580783 Score: 196
Period size: 39 Copynumber: 3.6 Consensus size: 39
1580632 ATCCCCAGTG
*
1580642 GAAG-AGTTCATAATGAGAAAAACTCATCTGAAGAAGGAA
1 GAAGAAGTTCATAATGAGAAAAACTCATCTAAAGAA-GAA
* *
1580681 GAAGAAATTCATAATGAGAAGAACTCATCTAAAGAAGAA
1 GAAGAAGTTCATAATGAGAAAAACTCATCTAAAGAAGAA
* * ** *
1580720 GAATAAGTTCATAATGAGAAGAACTCATCTTGAGAGGAA
1 GAAGAAGTTCATAATGAGAAAAACTCATCTAAAGAAGAA
1580759 GAAGAAGTTCATAATGAGAAAAACT
1 GAAGAAGTTCATAATGAGAAAAACT
1580784 TGTTCGGCCT
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 64 0.70
40 28 0.30
ACGTcount: A:0.49, C:0.10, G:0.21, T:0.20
Consensus pattern (39 bp):
GAAGAAGTTCATAATGAGAAAAACTCATCTAAAGAAGAA
Found at i:1582527 original size:143 final size:142
Alignment explanation
Indices: 1582330--1582588 Score: 382
Period size: 143 Copynumber: 1.8 Consensus size: 142
1582320 AAAATAATCA
* * * *
1582330 TATTTTAATATTTATTTTTTAATATTAAGAAATGGGCTGTCTTAAAGCATCTAGAAGTCATTTTC
1 TATTTTAATATTTATTTATT-ATATTAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTCATTTTC
*
1582395 TGATA-TTCTTAAATAAATAAATATCATATT-TTTATAAATTATATATATATTAATTTATTTTAA
65 TGATATTTC-TAAATAAATAAATAT--T-TTATTTATAAA-TATATATAAATTAATTTATTTTAA
1582458 TTATTTTTAGAAAGATGT
125 TTATTTTTAGAAAGATGT
*
1582476 TATTTTAATATTTATTTATT-T-TTAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCATTTTCT
1 TATTTTAATATTTATTTATTATATTAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTCATTTTCT
1582539 GATATTTCTAAATAAATAAATATTTTATTTATAAATATATATAAATTAAT
66 GATATTTCTAAATAAATAAATATTTTATTTATAAATATATATAAATTAAT
1582589 AGATTTTCTT
Statistics
Matches: 105, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
140 16 0.15
141 9 0.09
143 57 0.54
144 4 0.04
146 19 0.18
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (142 bp):
TATTTTAATATTTATTTATTATATTAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTCATTTTCT
GATATTTCTAAATAAATAAATATTTTATTTATAAATATATATAAATTAATTTATTTTAATTATTT
TTAGAAAGATGT
Found at i:1583159 original size:12 final size:12
Alignment explanation
Indices: 1583142--1583167 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1583132 TTTGTTAGCA
1583142 TGCTGCATATCC
1 TGCTGCATATCC
1583154 TGCTGCATATCC
1 TGCTGCATATCC
1583166 TG
1 TG
1583168 ATCTCGATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.31, G:0.19, T:0.35
Consensus pattern (12 bp):
TGCTGCATATCC
Found at i:1585442 original size:15 final size:16
Alignment explanation
Indices: 1585418--1585460 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
1585408 GCGGAGGGAG
1585418 GGAGATAGAGAGA-AA
1 GGAGATAGAGAGATAA
*
1585433 GGAGAGAGAGA-ATAA
1 GGAGATAGAGAGATAA
1585448 GGAGATAGAGAGA
1 GGAGATAGAGAGA
1585461 GGGATATACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.42, T:0.07
Consensus pattern (16 bp):
GGAGATAGAGAGATAA
Found at i:1585701 original size:20 final size:20
Alignment explanation
Indices: 1585678--1585775 Score: 133
Period size: 21 Copynumber: 4.8 Consensus size: 20
1585668 TTAATTATGT
* * *
1585678 GTTGCGAATTTTAAATTCGA
1 GTTGCGAATTTGAAAATCGC
*
1585698 GTTGAGAATTTGAAAATCGC
1 GTTGCGAATTTGAAAATCGC
1585718 GTTGCGAATTTGGAAAATCGC
1 GTTGCGAATTT-GAAAATCGC
1585739 GTTGCGAATTTAGAAAATCGC
1 GTTGCGAATTT-GAAAATCGC
*
1585760 GTTACGAATTTGAAAA
1 GTTGCGAATTTGAAAA
1585776 CTGTGTTGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
20 31 0.44
21 39 0.56
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (20 bp):
GTTGCGAATTTGAAAATCGC
Found at i:1585761 original size:42 final size:40
Alignment explanation
Indices: 1585678--1585775 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 40
1585668 TTAATTATGT
* *
1585678 GTTGCGAATTTTAAATTCGAGTTGAGAATTTGAAAATCGC
1 GTTGCGAATTTGAAAATCGAGTTGAGAATTTGAAAATCGC
* *
1585718 GTTGCGAATTTGGAAAATCGCGTTGCGAATTTAGAAAATCGC
1 GTTGCGAATTT-GAAAATCGAGTTGAGAATTT-GAAAATCGC
*
1585760 GTTACGAATTTGAAAA
1 GTTGCGAATTTGAAAA
1585776 CTGTGTTGTG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
40 11 0.22
41 21 0.41
42 19 0.37
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (40 bp):
GTTGCGAATTTGAAAATCGAGTTGAGAATTTGAAAATCGC
Found at i:1593105 original size:20 final size:20
Alignment explanation
Indices: 1593068--1593106 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1593058 AGACTGAGTG
* * *
1593068 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
1593088 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
1593107 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:1593292 original size:21 final size:21
Alignment explanation
Indices: 1593266--1593305 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1593256 CAGAACCCCA
*
1593266 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
1593287 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
1593306 TTAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:1603023 original size:23 final size:23
Alignment explanation
Indices: 1602964--1603030 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
1602954 CATTATTATA
*
1602964 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTATACG
* **
1602987 CGGCACTAAAGTGCAATTATACG
1 TGGCACTACGGTGCAATTATACG
* *
1603010 TGGCACTTCGGTGCATTTATA
1 TGGCACTACGGTGCAATTATA
1603031 TGAGCTGTGG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:1612245 original size:20 final size:20
Alignment explanation
Indices: 1612220--1612257 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1612210 CACATGTTAA
1612220 AGAATGCATCGATACACTGT
1 AGAATGCATCGATACACTGT
* *
1612240 AGAATGTATCGATGCACT
1 AGAATGCATCGATACACT
1612258 TCAAGGGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (20 bp):
AGAATGCATCGATACACTGT
Found at i:1612775 original size:123 final size:123
Alignment explanation
Indices: 1612634--1612875 Score: 484
Period size: 123 Copynumber: 2.0 Consensus size: 123
1612624 GTAATAATAC
1612634 AATGTTATTTGAGTTACTTAACAATAAGTCATAAGATTACATGCATATGTAACATAAGTTATACG
1 AATGTTATTTGAGTTACTTAACAATAAGTCATAAGATTACATGCATATGTAACATAAGTTATACG
1612699 ATGAGAAAATATGTGCTTACATGTATTTGCGGATATATATATATATATATATATGAAT
66 ATGAGAAAATATGTGCTTACATGTATTTGCGGATATATATATATATATATATATGAAT
1612757 AATGTTATTTGAGTTACTTAACAATAAGTCATAAGATTACATGCATATGTAACATAAGTTATACG
1 AATGTTATTTGAGTTACTTAACAATAAGTCATAAGATTACATGCATATGTAACATAAGTTATACG
1612822 ATGAGAAAATATGTGCTTACATGTATTTGCGGATATATATATATATATATATAT
66 ATGAGAAAATATGTGCTTACATGTATTTGCGGATATATATATATATATATATAT
1612876 ATATATATGA
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 119 1.00
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (123 bp):
AATGTTATTTGAGTTACTTAACAATAAGTCATAAGATTACATGCATATGTAACATAAGTTATACG
ATGAGAAAATATGTGCTTACATGTATTTGCGGATATATATATATATATATATATGAAT
Found at i:1612901 original size:2 final size:2
Alignment explanation
Indices: 1612854--1612883 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1612844 GTATTTGCGG
1612854 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1612884 GAATAAGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1613216 original size:18 final size:18
Alignment explanation
Indices: 1613190--1613293 Score: 163
Period size: 18 Copynumber: 5.8 Consensus size: 18
1613180 GGGTCTACGC
* *
1613190 GGTCTTTCGGGACATAGT
1 GGTCCTTCGGGACACAGT
*
1613208 GGTCATTCGGGACACAGT
1 GGTCCTTCGGGACACAGT
1613226 GGTCCTTCGGGACACAGT
1 GGTCCTTCGGGACACAGT
1613244 GGTCCTTCGGGACACAGT
1 GGTCCTTCGGGACACAGT
*
1613262 GGTCCTTCGGGACATAGT
1 GGTCCTTCGGGACACAGT
*
1613280 GGTCCTACGGGACA
1 GGTCCTTCGGGACA
1613294 AATTATACGC
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 81 1.00
ACGTcount: A:0.18, C:0.24, G:0.34, T:0.24
Consensus pattern (18 bp):
GGTCCTTCGGGACACAGT
Found at i:1614207 original size:25 final size:25
Alignment explanation
Indices: 1614179--1614235 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
1614169 CATTTTTATG
*
1614179 GCTAAAAGATGAGACTTTACTATCA
1 GCTAAAAGAGGAGACTTTACTATCA
1614204 GCTAAAAGAGGAGACTTTACTATCA
1 GCTAAAAGAGGAGACTTTACTATCA
1614229 GCTAAAA
1 GCTAAAA
1614236 TACAACTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.25
Consensus pattern (25 bp):
GCTAAAAGAGGAGACTTTACTATCA
Found at i:1620801 original size:28 final size:28
Alignment explanation
Indices: 1620768--1620825 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
1620758 ATGAAGGTTG
*
1620768 AAGAGAAATGATCAAGTCAAATGAAACT
1 AAGAGAAATGATCAAGTAAAATGAAACT
1620796 AAGAGAAATGATCAAGTAAAATGAAACT
1 AAGAGAAATGATCAAGTAAAATGAAACT
1620824 AA
1 AA
1620826 CTTGTAAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.57, C:0.09, G:0.17, T:0.17
Consensus pattern (28 bp):
AAGAGAAATGATCAAGTAAAATGAAACT
Found at i:1621290 original size:6 final size:6
Alignment explanation
Indices: 1621279--1621321 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
1621269 CAACCGACAA
1621279 AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG A
1 AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG A
1621322 ATCGAAGCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
AGGGAG
Found at i:1625329 original size:905 final size:905
Alignment explanation
Indices: 1623579--1625387 Score: 3618
Period size: 905 Copynumber: 2.0 Consensus size: 905
1623569 TAATGGTGGG
1623579 CCATGGGTTGTATTCTGATGTGGCAATAGCTGCATATGATCCTGCATGAGTCATCACAAGTTAGT
1 CCATGGGTTGTATTCTGATGTGGCAATAGCTGCATATGATCCTGCATGAGTCATCACAAGTTAGT
1623644 TATTTTGTTAGATTTCCAATACATACAGCTGTGGTACTTGTAATTATATAATCTGTACCCGATTC
66 TATTTTGTTAGATTTCCAATACATACAGCTGTGGTACTTGTAATTATATAATCTGTACCCGATTC
1623709 CATGGGGATTACCTTTGATGAATGAATGACAAATTCTCTTCTTAAAATTCTTCTTCTACTTCTCT
131 CATGGGGATTACCTTTGATGAATGAATGACAAATTCTCTTCTTAAAATTCTTCTTCTACTTCTCT
1623774 AAAATCCCCATTCCTTATCCTAAATCATATATTCTCTCGTCTACTCTCTCATCTTTTCTTCTCTT
196 AAAATCCCCATTCCTTATCCTAAATCATATATTCTCTCGTCTACTCTCTCATCTTTTCTTCTCTT
1623839 CTTCGTCTATTGTCTTCTCTATTTCTTGAGGACCATAACAATTGGTAATCAGAGCCTATTCTTGA
261 CTTCGTCTATTGTCTTCTCTATTTCTTGAGGACCATAACAATTGGTAATCAGAGCCTATTCTTGA
1623904 TCCAACTCAAGCTGGGTAAACAGAAAACAACATGGTGGAAAATAAACCTCCAGAAATTCAAGAAA
326 TCCAACTCAAGCTGGGTAAACAGAAAACAACATGGTGGAAAATAAACCTCCAGAAATTCAAGAAA
1623969 CGAGCAGTGGAGAACCATCCAAGACTGCACCGAAATGGTGGGAAGAACATAAAACAATTTGGGAA
391 CGAGCAGTGGAGAACCATCCAAGACTGCACCGAAATGGTGGGAAGAACATAAAACAATTTGGGAA
1624034 AATAGACTCAGCAGTTTAGAGCCAGATCAAAAGAAACCAAGGAATGCCTTCAAAGAATCTTGAAT
456 AATAGACTCAGCAGTTTAGAGCCAGATCAAAAGAAACCAAGGAATGCCTTCAAAGAATCTTGAAT
1624099 CTAATAACCAAGAACGCTAAAGAAATGGAGCAGACAACTCCCATGAGCAAGCAGCAGAATTTGGT
521 CTAATAACCAAGAACGCTAAAGAAATGGAGCAGACAACTCCCATGAGCAAGCAGCAGAATTTGGT
1624164 TAAAACCCATGCCAAAACAGAAGATTTACGAGACTCTCAATTCAAGACTTGCGGTGTTTTTAATC
586 TAAAACCCATGCCAAAACAGAAGATTTACGAGACTCTCAATTCAAGACTTGCGGTGTTTTTAATC
1624229 AAATTTTGTTCCCTCGTGATGTGCAACAAAAGATGCTTAAAGAGTCTGATTCGAGTGTTACTAGT
651 AAATTTTGTTCCCTCGTGATGTGCAACAAAAGATGCTTAAAGAGTCTGATTCGAGTGTTACTAGT
1624294 TATCATAAATCAACTCCAGTTCAGATGACTTATGAACAACAAATTACTTGGGAAAAAGGTATGGA
716 TATCATAAATCAACTCCAGTTCAGATGACTTATGAACAACAAATTACTTGGGAAAAAGGTATGGA
1624359 TCGACCTTCATTGGGTACTTCTCAACTCATTTTTATCCACTTCAAAATTTATTCGCCTGAAGGAA
781 TCGACCTTCATTGGGTACTTCTCAACTCATTTTTATCCACTTCAAAATTTATTCGCCTGAAGGAA
1624424 AAAGGGAACATGATGTTTCTCACGTGTTTGATAAAATGTCTATAAGAGTAGAAGACGCAC
846 AAAGGGAACATGATGTTTCTCACGTGTTTGATAAAATGTCTATAAGAGTAGAAGACGCAC
1624484 CCATGGGTTGTATTCTGATGTGGCAATAGCTGCATATGATCCTGCATGAGTCATCACAAGTTAGT
1 CCATGGGTTGTATTCTGATGTGGCAATAGCTGCATATGATCCTGCATGAGTCATCACAAGTTAGT
1624549 TATTTTGTTAGATTTCCAATACATACAGCTGTGGTACTTGTAATTATATAATCTGTACCCGATTC
66 TATTTTGTTAGATTTCCAATACATACAGCTGTGGTACTTGTAATTATATAATCTGTACCCGATTC
1624614 CATGGGGATTACCTTTGATGAATGAATGACAAATTCTCTTCTTAAAATTCTTCTTCTACTTCTCT
131 CATGGGGATTACCTTTGATGAATGAATGACAAATTCTCTTCTTAAAATTCTTCTTCTACTTCTCT
1624679 AAAATCCCCATTCCTTATCCTAAATCATATATTCTCTCGTCTACTCTCTCATCTTTTCTTCTCTT
196 AAAATCCCCATTCCTTATCCTAAATCATATATTCTCTCGTCTACTCTCTCATCTTTTCTTCTCTT
1624744 CTTCGTCTATTGTCTTCTCTATTTCTTGAGGACCATAACAATTGGTAATCAGAGCCTATTCTTGA
261 CTTCGTCTATTGTCTTCTCTATTTCTTGAGGACCATAACAATTGGTAATCAGAGCCTATTCTTGA
1624809 TCCAACTCAAGCTGGGTAAACAGAAAACAACATGGTGGAAAATAAACCTCCAGAAATTCAAGAAA
326 TCCAACTCAAGCTGGGTAAACAGAAAACAACATGGTGGAAAATAAACCTCCAGAAATTCAAGAAA
1624874 CGAGCAGTGGAGAACCATCCAAGACTGCACCGAAATGGTGGGAAGAACATAAAACAATTTGGGAA
391 CGAGCAGTGGAGAACCATCCAAGACTGCACCGAAATGGTGGGAAGAACATAAAACAATTTGGGAA
1624939 AATAGACTCAGCAGTTTAGAGCCAGATCAAAAGAAACCAAGGAATGCCTTCAAAGAATCTTGAAT
456 AATAGACTCAGCAGTTTAGAGCCAGATCAAAAGAAACCAAGGAATGCCTTCAAAGAATCTTGAAT
1625004 CTAATAACCAAGAACGCTAAAGAAATGGAGCAGACAACTCCCATGAGCAAGCAGCAGAATTTGGT
521 CTAATAACCAAGAACGCTAAAGAAATGGAGCAGACAACTCCCATGAGCAAGCAGCAGAATTTGGT
1625069 TAAAACCCATGCCAAAACAGAAGATTTACGAGACTCTCAATTCAAGACTTGCGGTGTTTTTAATC
586 TAAAACCCATGCCAAAACAGAAGATTTACGAGACTCTCAATTCAAGACTTGCGGTGTTTTTAATC
1625134 AAATTTTGTTCCCTCGTGATGTGCAACAAAAGATGCTTAAAGAGTCTGATTCGAGTGTTACTAGT
651 AAATTTTGTTCCCTCGTGATGTGCAACAAAAGATGCTTAAAGAGTCTGATTCGAGTGTTACTAGT
1625199 TATCATAAATCAACTCCAGTTCAGATGACTTATGAACAACAAATTACTTGGGAAAAAGGTATGGA
716 TATCATAAATCAACTCCAGTTCAGATGACTTATGAACAACAAATTACTTGGGAAAAAGGTATGGA
1625264 TCGACCTTCATTGGGTACTTCTCAACTCATTTTTATCCACTTCAAAATTTATTCGCCTGAAGGAA
781 TCGACCTTCATTGGGTACTTCTCAACTCATTTTTATCCACTTCAAAATTTATTCGCCTGAAGGAA
1625329 AAAGGGAACATGATGTTTCTCACGTGTTTGATAAAATGTCTATAAGAGTAGAAGACGCA
846 AAAGGGAACATGATGTTTCTCACGTGTTTGATAAAATGTCTATAAGAGTAGAAGACGCA
1625388 TTTCAATCGA
Statistics
Matches: 904, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
905 904 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (905 bp):
CCATGGGTTGTATTCTGATGTGGCAATAGCTGCATATGATCCTGCATGAGTCATCACAAGTTAGT
TATTTTGTTAGATTTCCAATACATACAGCTGTGGTACTTGTAATTATATAATCTGTACCCGATTC
CATGGGGATTACCTTTGATGAATGAATGACAAATTCTCTTCTTAAAATTCTTCTTCTACTTCTCT
AAAATCCCCATTCCTTATCCTAAATCATATATTCTCTCGTCTACTCTCTCATCTTTTCTTCTCTT
CTTCGTCTATTGTCTTCTCTATTTCTTGAGGACCATAACAATTGGTAATCAGAGCCTATTCTTGA
TCCAACTCAAGCTGGGTAAACAGAAAACAACATGGTGGAAAATAAACCTCCAGAAATTCAAGAAA
CGAGCAGTGGAGAACCATCCAAGACTGCACCGAAATGGTGGGAAGAACATAAAACAATTTGGGAA
AATAGACTCAGCAGTTTAGAGCCAGATCAAAAGAAACCAAGGAATGCCTTCAAAGAATCTTGAAT
CTAATAACCAAGAACGCTAAAGAAATGGAGCAGACAACTCCCATGAGCAAGCAGCAGAATTTGGT
TAAAACCCATGCCAAAACAGAAGATTTACGAGACTCTCAATTCAAGACTTGCGGTGTTTTTAATC
AAATTTTGTTCCCTCGTGATGTGCAACAAAAGATGCTTAAAGAGTCTGATTCGAGTGTTACTAGT
TATCATAAATCAACTCCAGTTCAGATGACTTATGAACAACAAATTACTTGGGAAAAAGGTATGGA
TCGACCTTCATTGGGTACTTCTCAACTCATTTTTATCCACTTCAAAATTTATTCGCCTGAAGGAA
AAAGGGAACATGATGTTTCTCACGTGTTTGATAAAATGTCTATAAGAGTAGAAGACGCAC
Found at i:1633297 original size:19 final size:21
Alignment explanation
Indices: 1633275--1633316 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
1633265 ATTAGATACT
1633275 ATGTATTTT-TT-GTTATCAA
1 ATGTATTTTATTAGTTATCAA
*
1633294 ATGTATTTTATTATTTATCAA
1 ATGTATTTTATTAGTTATCAA
1633315 AT
1 AT
1633317 TAATAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 2 0.10
21 9 0.45
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.57
Consensus pattern (21 bp):
ATGTATTTTATTAGTTATCAA
Found at i:1633968 original size:37 final size:36
Alignment explanation
Indices: 1633893--1633968 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
1633883 TTTTTATATT
*
1633893 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
1633929 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
1633966 TTT
1 TTT
1633969 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:1634150 original size:20 final size:20
Alignment explanation
Indices: 1634114--1634151 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1634104 ATCCTATTCC
**
1634114 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
1634134 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
1634152 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:1636040 original size:60 final size:60
Alignment explanation
Indices: 1635924--1636040 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 60
1635914 CATTTGACAC
* * * * * *
1635924 GATGCCTTCAAGTTCTAAGGGGAGGTATTCAACTGCGAGCTTCTTCGACTTCAATGTTGA
1 GATGCCTTCAAGTTCTAAGGGGAGATATTCAACTACCAGCTTATTCGACCTAAATGTTGA
* * *
1635984 GATGCCTTTAAGTTC-AAGGGGAAGATATTTAACTACCAGGTTATTCGACCTAAATGT
1 GATGCCTTCAAGTTCTAAGGGG-AGATATTCAACTACCAGCTTATTCGACCTAAATGT
1636041 CAGCATCGTG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
59 6 0.13
60 41 0.87
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (60 bp):
GATGCCTTCAAGTTCTAAGGGGAGATATTCAACTACCAGCTTATTCGACCTAAATGTTGA
Found at i:1638209 original size:22 final size:22
Alignment explanation
Indices: 1638183--1638235 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
1638173 CAACCATTTC
1638183 TTTTTCTATTTTATTTCTT-TTT
1 TTTTTCT-TTTTATTTCTTGTTT
*
1638205 TTTTTGCTTTTTTTTTCTTGTTT
1 TTTTT-CTTTTTATTTCTTGTTT
1638228 TTTTTCTT
1 TTTTTCTT
1638236 CGTGTGGACC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.04, C:0.09, G:0.04, T:0.83
Consensus pattern (22 bp):
TTTTTCTTTTTATTTCTTGTTT
Found at i:1638217 original size:14 final size:13
Alignment explanation
Indices: 1638200--1638232 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
1638190 ATTTTATTTC
1638200 TTTTTTTT-TTGCT
1 TTTTTTTTCTTG-T
1638213 TTTTTTTTCTTGT
1 TTTTTTTTCTTGT
1638226 TTTTTTT
1 TTTTTTT
1638233 CTTCGTGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTGT
Found at i:1638232 original size:12 final size:11
Alignment explanation
Indices: 1638183--1638235 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
1638173 CAACCATTTC
*
1638183 TTTTTCTATTT
1 TTTTTCTTTTT
*
1638194 TATTTCTTTTT
1 TTTTTCTTTTT
1638205 TTTTTGC-TTTT
1 TTTTT-CTTTTT
1638216 TTTTTCTTGTTT
1 TTTTTCTT-TTT
1638228 TTTTTCTT
1 TTTTTCTT
1638236 CGTGTGGACC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
10 1 0.03
11 23 0.64
12 12 0.33
ACGTcount: A:0.04, C:0.09, G:0.04, T:0.83
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:1640665 original size:22 final size:22
Alignment explanation
Indices: 1640637--1640703 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
1640627 TGACCTGACC
* *
1640637 CTTTGATCGGTCTGATTGTTTA
1 CTTTGATCGGTCTGACTGTTGA
*
1640659 CTTTGATCGGTCTGACCGTTGA
1 CTTTGATCGGTCTGACTGTTGA
*
1640681 CTTTGATCGGTTTGACTGTTGA
1 CTTTGATCGGTCTGACTGTTGA
1640703 C
1 C
1640704 CGTTGACTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.13, C:0.18, G:0.25, T:0.43
Consensus pattern (22 bp):
CTTTGATCGGTCTGACTGTTGA
Found at i:1640697 original size:15 final size:13
Alignment explanation
Indices: 1640671--1640715 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
1640661 TTGATCGGTC
1640671 TGACCGTTGACTT
1 TGACCGTTGACTT
*
1640684 TGATCGGTTTGACTGT
1 TGA-CCG-TTGACT-T
1640700 TGACCGTTGACTT
1 TGACCGTTGACTT
1640713 TGA
1 TGA
1640716 ATTTGACCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 7 0.26
14 8 0.30
15 8 0.30
16 4 0.15
ACGTcount: A:0.16, C:0.18, G:0.27, T:0.40
Consensus pattern (13 bp):
TGACCGTTGACTT
Found at i:1642060 original size:35 final size:35
Alignment explanation
Indices: 1642020--1642156 Score: 148
Period size: 35 Copynumber: 3.9 Consensus size: 35
1642010 GTCTCTTCAA
* * *
1642020 GTTCAGTTCGATTAAACTGGTAACTCCTTATATAG
1 GTTCAGATCGATCAAACTGGTAATTCCTTATATAG
* * ** *
1642055 GTTCAGACCGATCGAACTGACAATTCCTTACGATAG
1 GTTCAGATCGATCAAACTGGTAATTCCTTA-TATAG
* *
1642091 GTTTAGCTCGATCAAACTGGTAATTCCTTATATAG
1 GTTCAGATCGATCAAACTGGTAATTCCTTATATAG
* * *
1642126 GTTCAGACCGATCAAACTGATAATTCTTTAT
1 GTTCAGATCGATCAAACTGGTAATTCCTTAT
1642157 GGATCTAAAG
Statistics
Matches: 81, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
35 53 0.65
36 28 0.35
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (35 bp):
GTTCAGATCGATCAAACTGGTAATTCCTTATATAG
Found at i:1642253 original size:63 final size:63
Alignment explanation
Indices: 1642173--1642303 Score: 226
Period size: 63 Copynumber: 2.1 Consensus size: 63
1642163 AAAGTGACCA
* *
1642173 TTAGGTGGGCTCCTAGGCCTAATGGGCCTAGTGGTAAGACCTTATGGACCCTAAAGAACTCCC
1 TTAGGTAGGCTCCTAGGCCTAATAGGCCTAGTGGTAAGACCTTATGGACCCTAAAGAACTCCC
* *
1642236 TTAGGTAGGCTCTTAGGCCTAATAGGCCTAGTGGTAAGACCTTATGGACCCTAAGGAACTCCC
1 TTAGGTAGGCTCCTAGGCCTAATAGGCCTAGTGGTAAGACCTTATGGACCCTAAAGAACTCCC
1642299 TTAGG
1 TTAGG
1642304 GTGGCACCTC
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (63 bp):
TTAGGTAGGCTCCTAGGCCTAATAGGCCTAGTGGTAAGACCTTATGGACCCTAAAGAACTCCC
Found at i:1645919 original size:23 final size:23
Alignment explanation
Indices: 1645902--1645961 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
1645892 TCGTATAAAC
1645902 GCACCGAAGTGCCACGTAGAATT
1 GCACCGAAGTGCCACGTAGAATT
*
1645925 GCACCGAAGTGCCGCGTAGAATT
1 GCACCGAAGTGCCACGTAGAATT
*
1645948 GCACCGTAGTGCCA
1 GCACCGAAGTGCCA
1645962 TATAAGATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.27, C:0.28, G:0.28, T:0.17
Consensus pattern (23 bp):
GCACCGAAGTGCCACGTAGAATT
Found at i:1646774 original size:13 final size:13
Alignment explanation
Indices: 1646756--1646786 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1646746 TGATGCATCG
1646756 GTGCACATTGAAT
1 GTGCACATTGAAT
1646769 GTGCACATTGAAT
1 GTGCACATTGAAT
1646782 GTGCA
1 GTGCA
1646787 TCGATGCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (13 bp):
GTGCACATTGAAT
Found at i:1647271 original size:14 final size:15
Alignment explanation
Indices: 1647252--1647280 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1647242 GTCTCACGAG
1647252 GAAGAAGAA-ATAAA
1 GAAGAAGAAGATAAA
1647266 GAAGAAGAAGATAAA
1 GAAGAAGAAGATAAA
1647281 TATGGAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (15 bp):
GAAGAAGAAGATAAA
Found at i:1652864 original size:23 final size:23
Alignment explanation
Indices: 1652838--1652897 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
1652828 TCGTATAAAC
1652838 GCACCGAAGTGCCACGTAGAATT
1 GCACCGAAGTGCCACGTAGAATT
* * **
1652861 GCACTGAAGTTCCGTGTAGAATT
1 GCACCGAAGTGCCACGTAGAATT
*
1652884 GCACCGTAGTGCCA
1 GCACCGAAGTGCCA
1652898 TATAAGATTG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.22
Consensus pattern (23 bp):
GCACCGAAGTGCCACGTAGAATT
Found at i:1653165 original size:31 final size:30
Alignment explanation
Indices: 1653121--1653180 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
1653111 TATTGTATAG
*
1653121 ACATATAATTTCCAT-ATCTTTATCACATAA
1 ACATATAATTTCCATCA-CCTTATCACATAA
*
1653151 ACATATCATGTTCCATCACCTTATCACATA
1 ACATATAAT-TTCCATCACCTTATCACATA
1653181 GCTTATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 8 0.31
31 17 0.65
32 1 0.04
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.37
Consensus pattern (30 bp):
ACATATAATTTCCATCACCTTATCACATAA
Found at i:1653251 original size:25 final size:25
Alignment explanation
Indices: 1653223--1653284 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
1653213 CTTAATGCAT
* *
1653223 ATAATATGAATTTATATCATGTATC
1 ATAATATGAATTGAGATCATGTATC
* *
1653248 ATAATATGAAATGCGATCATGTATC
1 ATAATATGAATTGAGATCATGTATC
*
1653273 AAAATATTGAAT
1 ATAATA-TGAAT
1653285 CTAGACTTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 26 0.87
26 4 0.13
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (25 bp):
ATAATATGAATTGAGATCATGTATC
Found at i:1657360 original size:14 final size:14
Alignment explanation
Indices: 1657341--1657381 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1657331 AAAAACAACC
*
1657341 CAAATAAGCAATAT
1 CAAATAAGCAACAT
*
1657355 CAAATAATCAACAT
1 CAAATAAGCAACAT
*
1657369 CAAATAATCAACA
1 CAAATAAGCAACA
1657382 AGGAGTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.59, C:0.20, G:0.02, T:0.20
Consensus pattern (14 bp):
CAAATAAGCAACAT
Found at i:1661228 original size:170 final size:170
Alignment explanation
Indices: 1660946--1661284 Score: 678
Period size: 170 Copynumber: 2.0 Consensus size: 170
1660936 CTCTTAGTCC
1660946 AGTCGTGGATGTAAATTCAATTAGAAAGAAAACTGAACCCCAAGAACTTCAGGCTGCTTTGCAAC
1 AGTCGTGGATGTAAATTCAATTAGAAAGAAAACTGAACCCCAAGAACTTCAGGCTGCTTTGCAAC
1661011 GGCCTGCACAACCTAAGATTATATCCCAGCGATCTCCTCAGTCTTCAATCTCTTCTCCCGTGTCA
66 GGCCTGCACAACCTAAGATTATATCCCAGCGATCTCCTCAGTCTTCAATCTCTTCTCCCGTGTCA
1661076 TGTAGCAATTCCTTGCAAGGTTCACCTGCACCAATATCAG
131 TGTAGCAATTCCTTGCAAGGTTCACCTGCACCAATATCAG
1661116 AGTCGTGGATGTAAATTCAATTAGAAAGAAAACTGAACCCCAAGAACTTCAGGCTGCTTTGCAAC
1 AGTCGTGGATGTAAATTCAATTAGAAAGAAAACTGAACCCCAAGAACTTCAGGCTGCTTTGCAAC
1661181 GGCCTGCACAACCTAAGATTATATCCCAGCGATCTCCTCAGTCTTCAATCTCTTCTCCCGTGTCA
66 GGCCTGCACAACCTAAGATTATATCCCAGCGATCTCCTCAGTCTTCAATCTCTTCTCCCGTGTCA
1661246 TGTAGCAATTCCTTGCAAGGTTCACCTGCACCAATATCA
131 TGTAGCAATTCCTTGCAAGGTTCACCTGCACCAATATCA
1661285 AGATACTGCA
Statistics
Matches: 169, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
170 169 1.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (170 bp):
AGTCGTGGATGTAAATTCAATTAGAAAGAAAACTGAACCCCAAGAACTTCAGGCTGCTTTGCAAC
GGCCTGCACAACCTAAGATTATATCCCAGCGATCTCCTCAGTCTTCAATCTCTTCTCCCGTGTCA
TGTAGCAATTCCTTGCAAGGTTCACCTGCACCAATATCAG
Found at i:1662372 original size:27 final size:27
Alignment explanation
Indices: 1662334--1662414 Score: 162
Period size: 27 Copynumber: 3.0 Consensus size: 27
1662324 ATATACAAAA
1662334 CTGGATCTTTTGGTGTCTTTTAACCTG
1 CTGGATCTTTTGGTGTCTTTTAACCTG
1662361 CTGGATCTTTTGGTGTCTTTTAACCTG
1 CTGGATCTTTTGGTGTCTTTTAACCTG
1662388 CTGGATCTTTTGGTGTCTTTTAACCTG
1 CTGGATCTTTTGGTGTCTTTTAACCTG
1662415 TCTACATTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.11, C:0.19, G:0.22, T:0.48
Consensus pattern (27 bp):
CTGGATCTTTTGGTGTCTTTTAACCTG
Found at i:1668419 original size:16 final size:16
Alignment explanation
Indices: 1668386--1668419 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1668376 TTACTATTCA
* *
1668386 CGTGAATAGTGAATTT
1 CGTGAATAGTAAAATT
1668402 CGTGAATAGTAAAATT
1 CGTGAATAGTAAAATT
1668418 CG
1 CG
1668420 GTCGGCGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTAAAATT
Found at i:1669190 original size:15 final size:16
Alignment explanation
Indices: 1669170--1669201 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
1669160 TGGCAGATCC
1669170 AAATCCAG-ACGGGAA
1 AAATCCAGAACGGGAA
1669185 AAATCCAGAACGGGAA
1 AAATCCAGAACGGGAA
1669201 A
1 A
1669202 GAAATTTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.50, C:0.19, G:0.25, T:0.06
Consensus pattern (16 bp):
AAATCCAGAACGGGAA
Found at i:1680049 original size:73 final size:73
Alignment explanation
Indices: 1679967--1680108 Score: 284
Period size: 73 Copynumber: 1.9 Consensus size: 73
1679957 AATCTAAACG
1679967 GATGTTTTTCTTTGTCGACAGGAATTTCCAAATTCGTGTTTACTAGAATCAGGTTATGATCAGAA
1 GATGTTTTTCTTTGTCGACAGGAATTTCCAAATTCGTGTTTACTAGAATCAGGTTATGATCAGAA
1680032 TAAATTTA
66 TAAATTTA
1680040 GATGTTTTTCTTTGTCGACAGGAATTTCCAAATTCGTGTTTACTAGAATCAGGTTATGATCAGAA
1 GATGTTTTTCTTTGTCGACAGGAATTTCCAAATTCGTGTTTACTAGAATCAGGTTATGATCAGAA
1680105 TAAA
66 TAAA
1680109 CTCTTGTTAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (73 bp):
GATGTTTTTCTTTGTCGACAGGAATTTCCAAATTCGTGTTTACTAGAATCAGGTTATGATCAGAA
TAAATTTA
Found at i:1683005 original size:126 final size:127
Alignment explanation
Indices: 1682780--1683032 Score: 499
Period size: 126 Copynumber: 2.0 Consensus size: 127
1682770 CCCAACTCGA
1682780 AACCTTAATAAATTGAGTCGACCAAATTCCAGCTCGACTCAATAAATCCGTGAGTAACTCGCCAA
1 AACCTTAATAAATTGAGTCGACCAAATTCCAGCTCGACTCAATAAATCCGTGAGTAACTCGCCAA
1682845 CTTTTTTTTATAAATTTTTAGTAGTTCTCTTAAAAAATTATTTCATT-AAAAAGTATTAACT
66 CTTTTTTTTATAAATTTTTAGTAGTTCTCTTAAAAAATTATTTCATTAAAAAAGTATTAACT
1682906 AACCTTAATAAATTGAGTCGACCAAATTCCAGCTCGACTCAATAAATCCGTGAGTAACTCGCCAA
1 AACCTTAATAAATTGAGTCGACCAAATTCCAGCTCGACTCAATAAATCCGTGAGTAACTCGCCAA
1682971 CTTTTTTTTATAAATTTTTAGTAGTTCTCTTAAAAAATTATTTCATTAAAAAAGTATTAACT
66 CTTTTTTTTATAAATTTTTAGTAGTTCTCTTAAAAAATTATTTCATTAAAAAAGTATTAACT
1683033 TACTAATAGA
Statistics
Matches: 126, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
126 112 0.89
127 14 0.11
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.36
Consensus pattern (127 bp):
AACCTTAATAAATTGAGTCGACCAAATTCCAGCTCGACTCAATAAATCCGTGAGTAACTCGCCAA
CTTTTTTTTATAAATTTTTAGTAGTTCTCTTAAAAAATTATTTCATTAAAAAAGTATTAACT
Found at i:1684311 original size:16 final size:15
Alignment explanation
Indices: 1684287--1684322 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
1684277 ATTATATAAA
*
1684287 ATATAATGAATTATTT
1 ATATTATGAATTA-TT
1684303 ATATTATGAATTATT
1 ATATTATGAATTATT
1684318 ATATT
1 ATATT
1684323 TTGTATTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (15 bp):
ATATTATGAATTATT
Found at i:1684544 original size:14 final size:14
Alignment explanation
Indices: 1684525--1684563 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
1684515 CCCAGAAGTT
*
1684525 TCGGGTACCGGAAA
1 TCGGGTACCGAAAA
1684539 TCGGGTACCCGAAAA
1 TCGGGTA-CCGAAAA
1684554 TCCGGGTACC
1 T-CGGGTACC
1684564 CGAATTTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 7 0.32
15 9 0.41
16 6 0.27
ACGTcount: A:0.26, C:0.28, G:0.31, T:0.15
Consensus pattern (14 bp):
TCGGGTACCGAAAA
Found at i:1684561 original size:16 final size:15
Alignment explanation
Indices: 1684525--1684567 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 15
1684515 CCCAGAAGTT
*
1684525 TCGGGTA-CCGGAAA
1 TCGGGTACCCGAAAA
1684539 TCGGGTACCCGAAAA
1 TCGGGTACCCGAAAA
1684554 TCCGGGTACCCGAA
1 T-CGGGTACCCGAA
1684568 TTTGCACATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 7 0.27
15 7 0.27
16 12 0.46
ACGTcount: A:0.28, C:0.28, G:0.30, T:0.14
Consensus pattern (15 bp):
TCGGGTACCCGAAAA
Found at i:1689917 original size:6 final size:6
Alignment explanation
Indices: 1689906--1689931 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1689896 TGTCATCTTG
1689906 GTTATT GTTATT GTTATT GTTATT GT
1 GTTATT GTTATT GTTATT GTTATT GT
1689932 AATGACATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.19, T:0.65
Consensus pattern (6 bp):
GTTATT
Found at i:1690549 original size:32 final size:32
Alignment explanation
Indices: 1690508--1690594 Score: 95
Period size: 32 Copynumber: 2.7 Consensus size: 32
1690498 GGTAAGAAAT
* * *
1690508 TTATTTTTATGTTAGTATTT-TTTAAATAGTTA
1 TTATTTTTATATTAATATTTATGTAAATA-TTA
1690540 TTATTTTTATATTAATATTTATGTAAATATTA
1 TTATTTTTATATTAATATTTATGTAAATATTA
* * *
1690572 TTTTTTATTAAAATAATATTTAT
1 TTATTT-TTATATTAATATTTAT
1690595 AATTATTATT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
32 26 0.55
33 21 0.45
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (32 bp):
TTATTTTTATATTAATATTTATGTAAATATTA
Found at i:1690569 original size:18 final size:17
Alignment explanation
Indices: 1690523--1690594 Score: 55
Period size: 18 Copynumber: 4.4 Consensus size: 17
1690513 TTTATGTTAG
* *
1690523 TATTTTTTAAATAGTTAT
1 TATTTATTAAATA-TTAA
1690541 TATTT-TT--ATATTAA
1 TATTTATTAAATATTAA
*
1690555 TATTTATGTAAATATTAT
1 TATTTAT-TAAATATTAA
*
1690573 TTTTTATTAAA-A-TAA
1 TATTTATTAAATATTAA
1690588 TATTTAT
1 TATTTAT
1690595 AATTATTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
14 8 0.18
15 12 0.27
16 2 0.04
17 6 0.13
18 17 0.38
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
TATTTATTAAATATTAA
Found at i:1690589 original size:33 final size:31
Alignment explanation
Indices: 1690530--1690610 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 31
1690520 TAGTATTTTT
* * *
1690530 TAAATAGTTATTATTT-TTATATTAATATTTA
1 TAAATA-TTATTTTTTATTAAAATAATATTTA
1690561 TGTAAATATTATTTTTTATTAAAATAATATTTA
1 --TAAATATTATTTTTTATTAAAATAATATTTA
*
1690594 TAATTATTATTTATTTA
1 TAAATATTATTT-TTTA
1690611 AAATTATTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 11 0.26
32 12 0.29
33 19 0.45
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (31 bp):
TAAATATTATTTTTTATTAAAATAATATTTA
Found at i:1692329 original size:21 final size:21
Alignment explanation
Indices: 1692305--1692352 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1692295 GCAGGGGTAC
* *
1692305 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
1692326 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
1692347 ATGCCA
1 ATGCCA
1692353 TCTCCGCAGG
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:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:1692406 original size:21 final size:21
Alignment explanation
Indices: 1692359--1692420 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
1692349 GCCATCTCCG
*
1692359 CAGGTTACATTCCGAGCCCG-
1 CAGGTTACATTCCTAGCCCGC
*
1692379 TAGGTTACATTCCTAGCCCGC
1 CAGGTTACATTCCTAGCCCGC
*
1692400 CAGGTTACATGCCTAGCCCGC
1 CAGGTTACATTCCTAGCCCGC
1692421 AGGGTTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 18 0.49
21 19 0.51
ACGTcount: A:0.19, C:0.35, G:0.23, T:0.23
Consensus pattern (21 bp):
CAGGTTACATTCCTAGCCCGC
Found at i:1692426 original size:21 final size:20
Alignment explanation
Indices: 1692356--1692423 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
1692346 TATGCCATCT
*
1692356 CCGCAGGTTACATTCCGAGC
1 CCGCAGGTTACATTCCTAGC
*
1692376 CCGTAGGTTACATTCCTAGC
1 CCGCAGGTTACATTCCTAGC
*
1692396 CCGCCAGGTTACATGCCTAGC
1 CCG-CAGGTTACATTCCTAGC
1692417 CCGCAGG
1 CCGCAGG
1692424 GTTTTATACC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
20 25 0.58
21 18 0.42
ACGTcount: A:0.19, C:0.35, G:0.25, T:0.21
Consensus pattern (20 bp):
CCGCAGGTTACATTCCTAGC
Found at i:1692801 original size:104 final size:99
Alignment explanation
Indices: 1692658--1692858 Score: 357
Period size: 104 Copynumber: 2.0 Consensus size: 99
1692648 TTCAAGACGA
1692658 CATCGGTGATCATTATTTTAATGTTATTTAAATAATTAAATTTCAGAATTTTATGTAATTTGGTT
1 CATCGGTGATCATTATTTTAATGTTATTTAAATAATTAAATTTCAGAATTTTATGTAATTTGGTT
1692723 ATGTTATTTAAATGTTTCATGGTTGTTACATACACG
66 A--TTATTTAAATGTTTCATGGTTGTTACATACACG
1692759 CATCGGTGATCCAGTTATATTTAATGTTATTTAAATAATTAAATTTCAGAATTTTATGTAATTTG
1 CATCGGTGAT-CA-TTAT-TTTAATGTTATTTAAATAATTAAATTTCAGAATTTTATGTAATTTG
1692824 GTTATTATTTAAATGTTTCATGGTTGTTACATACA
63 GTTATTATTTAAATGTTTCATGGTTGTTACATACA
1692859 TATTTTTTAA
Statistics
Matches: 97, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
101 10 0.10
102 33 0.34
103 4 0.04
104 50 0.52
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.47
Consensus pattern (99 bp):
CATCGGTGATCATTATTTTAATGTTATTTAAATAATTAAATTTCAGAATTTTATGTAATTTGGTT
ATTATTTAAATGTTTCATGGTTGTTACATACACG
Found at i:1692976 original size:33 final size:34
Alignment explanation
Indices: 1692917--1693013 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
1692907 AAATGTTTTT
*
1692917 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
1692951 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
1692984 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
1693014 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:1693020 original size:34 final size:33
Alignment explanation
Indices: 1692915--1693020 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
1692905 ATAAATGTTT
*
1692915 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
1692949 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
1692981 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
1693016 TTAAA
1 TTAAA
1693021 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:1693734 original size:128 final size:128
Alignment explanation
Indices: 1693399--1694015 Score: 1012
Period size: 128 Copynumber: 4.9 Consensus size: 128
1693389 AGTTATTCAA
**
1693399 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAAAGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
*
1693464 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTAAATAGTGAAATAATAGG-
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
1693526 --TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
*
1693589 GACGAAATAATGGAAGGCGCGCCCCTGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
1693652 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1693717 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAA-AATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
1693779 ACTGATATATC---TGT--CCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
* *** *
1693839 GACGAAATAATGGAAGACGCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGGT
* *
1693902 AATGATATATCTAGTGTCCCCGAGGGACATGAATGACAT-ATAGGGCAATG--AA-ATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
*
1693963 GACGAAATAATGGAA-GCGCGCCCCTGGGAACGCGCCTTCATGTGAATAGTGAA
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAA
1694016 CCGATTATAG
Statistics
Matches: 461, Mismatches: 18, Indels: 26
0.91 0.04 0.05
Matches are distributed among these distances:
122 95 0.21
123 48 0.10
124 27 0.06
125 123 0.27
126 3 0.01
127 29 0.06
128 136 0.30
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (128 bp):
ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
Found at i:1693919 original size:250 final size:250
Alignment explanation
Indices: 1693401--1694015 Score: 996
Period size: 250 Copynumber: 2.5 Consensus size: 250
1693391 TTATTCAAAC
**
1693401 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAAAGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
*
1693466 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTAAATAGTGAAATAATAGGTGATA
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTGATA
1693531 TATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAA
131 TATC-A-TGT-CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAA
* * * * *
1693596 TAATGGAAGGCGCGCCCCTGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
193 TAATGGAAGACGCGCCCCCGGGAACGCGCCTTCATGTCAATAGAGAAATAATAGGTAA
1693654 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
1693719 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAA-AATAGGTACTG
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG---TG
1693783 ATATATC-TGT-CCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAA
128 ATATATCATGTCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAA
**
1693846 TAATGGAAGACGCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGGTAA
193 TAATGGAAGACGCGCCCCCGGGAACGCGCCTTCATGT-CAATAGAGAAATAATAGGTAA
*
1693904 TGATATATCTAGTGTCCCCGAGGGACATGAATGACAT-ATAGGGCAATG--AA-ATATTCTCTGA
1 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
*
1693965 CGAAATAATGGAA-GCGCGCCCCTGGGAACGCGCCTTCATGTGAATAGTGAA
66 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAA
1694016 CCGATTATAG
Statistics
Matches: 346, Mismatches: 12, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
245 37 0.11
246 24 0.07
247 2 0.01
249 11 0.03
250 138 0.40
251 1 0.00
252 9 0.03
253 115 0.33
255 9 0.03
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (250 bp):
TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTGATA
TATCATGTCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAA
TGGAAGACGCGCCCCCGGGAACGCGCCTTCATGTCAATAGAGAAATAATAGGTAA
Found at i:1694096 original size:8 final size:8
Alignment explanation
Indices: 1694083--1694123 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
1694073 TCACAATCTT
1694083 TCAAATTC
1 TCAAATTC
1694091 TCAAATTC
1 TCAAATTC
* *
1694099 CCAAACTC
1 TCAAATTC
1694107 T-AAATTC
1 TCAAATTC
1694114 TCAAATTC
1 TCAAATTC
1694122 TC
1 TC
1694124 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:1704054 original size:185 final size:186
Alignment explanation
Indices: 1703742--1704112 Score: 719
Period size: 185 Copynumber: 2.0 Consensus size: 186
1703732 ACAACGGAAA
1703742 GTGGGGAATTGGATTTCCCCATGTGACAAGTTGCGGTTTGGATGTTCGTACCTATAATCGGATTA
1 GTGGGGAATTGGATTTCCCCATGTGACAAGTTGCGGTTTGGATGTTCGTACCTATAATCGGATTA
1703807 GCAACCCTAAACTTAAAATGTATCTAAATTAATATGCAGTCTTGGCATGTCGAAATACAAGTTTT
66 GCAACCCTAAACTTAAAATGTATCTAAATTAATATGCAGTCTTGGCATGTCGAAATACAAG-TTT
1703872 CAGACTAAAT-GGTAAAACTTAAGTATCACGAG-TGAGTGGCTGGAATGTTCTTCTC
130 CAGACTAAATGGGTAAAACTTAAGTATCACGAGTTGAGTGGCTGGAATGTTCTTCTC
1703927 GTGGGGAATTGGATTTCCCCATGTGACAAGTTGCGGTTTGGATGTTCGTACCTATAATCGGATTA
1 GTGGGGAATTGGATTTCCCCATGTGACAAGTTGCGGTTTGGATGTTCGTACCTATAATCGGATTA
1703992 GCAACCCTAAACTTAAAATGTATCTAAATTAATATGCAGTCTTGGCATGTCGAAATACAAGTTTC
66 GCAACCCTAAACTTAAAATGTATCTAAATTAATATGCAGTCTTGGCATGTCGAAATACAAGTTTC
1704057 AGACTAAATGGGTAAAACTTAAGTATCACGAGTTGAGTGGCTGGAATGTTCTTCTC
131 AGACTAAATGGGTAAAACTTAAGTATCACGAGTTGAGTGGCTGGAATGTTCTTCTC
1704113 TTGTGCCTTC
Statistics
Matches: 184, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
184 13 0.07
185 148 0.80
186 23 0.12
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (186 bp):
GTGGGGAATTGGATTTCCCCATGTGACAAGTTGCGGTTTGGATGTTCGTACCTATAATCGGATTA
GCAACCCTAAACTTAAAATGTATCTAAATTAATATGCAGTCTTGGCATGTCGAAATACAAGTTTC
AGACTAAATGGGTAAAACTTAAGTATCACGAGTTGAGTGGCTGGAATGTTCTTCTC
Found at i:1704981 original size:6 final size:6
Alignment explanation
Indices: 1704970--1704997 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
1704960 CAGTAAGTCA
1704970 GGCTAG GGCTAG GGCTAG GGCTAG GGCT
1 GGCTAG GGCTAG GGCTAG GGCTAG GGCT
1704998 GGGACTGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.18, G:0.50, T:0.18
Consensus pattern (6 bp):
GGCTAG
Found at i:1705392 original size:22 final size:21
Alignment explanation
Indices: 1705365--1705408 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1705355 TTATCAAAAA
* *
1705365 TATTAAAAAATATTAATATTT
1 TATTTAAAAATAATAATATTT
1705386 TATTTAAAAATAATAATATTT
1 TATTTAAAAATAATAATATTT
1705407 TA
1 TA
1705409 AGTAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TATTTAAAAATAATAATATTT
Found at i:1706319 original size:26 final size:29
Alignment explanation
Indices: 1706290--1706342 Score: 76
Period size: 26 Copynumber: 1.9 Consensus size: 29
1706280 TATTTTAAAA
*
1706290 TATTTATTTATTT-TTT-AAA-ATTATAT
1 TATTTACTTATTTATTTGAAATATTATAT
1706316 TATTTACTTATTTATTTGAAATATTAT
1 TATTTACTTATTTATTTGAAATATTAT
1706343 TTTTAACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 12 0.52
27 3 0.13
28 3 0.13
29 5 0.22
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (29 bp):
TATTTACTTATTTATTTGAAATATTATAT
Found at i:1706321 original size:22 final size:20
Alignment explanation
Indices: 1706282--1706321 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1706272 TATGAAAATA
1706282 TTTTAAAATATTTATTTATT
1 TTTTAAAATATTTATTTATT
1706302 TTTTAAAATTATATTATTTA
1 TTTTAAAA-TAT-TTATTTA
1706322 CTTATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 3 0.17
22 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTAAAATATTTATTTATT
Found at i:1706351 original size:27 final size:26
Alignment explanation
Indices: 1706297--1706353 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
1706287 AAATATTTAT
*
1706297 TTATTTTTTAAAATTATATTATTTAC
1 TTATTTTTTAAAATTATATTATTAAC
1706323 TTATTTATTTGAAATATTAT-TT-TTAAC
1 TTATTT-TTT-AAA-ATTATATTATTAAC
1706350 TTAT
1 TTAT
1706354 ATTTAATCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 6 0.22
27 11 0.41
28 5 0.19
29 5 0.19
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (26 bp):
TTATTTTTTAAAATTATATTATTAAC
Found at i:1719945 original size:31 final size:30
Alignment explanation
Indices: 1719910--1719969 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
1719900 GATTTAGTTA
* * *
1719910 GTGACCAAATTATAAGATTTTGTAAAGTTTG
1 GTGACCAAAGTATAA-ACTTTGAAAAGTTTG
*
1719941 GTGACTAAAGTATAAACTTTGAAAAGTTT
1 GTGACCAAAGTATAAACTTTGAAAAGTTT
1719970 AGGGACTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.37
Consensus pattern (30 bp):
GTGACCAAAGTATAAACTTTGAAAAGTTTG
Found at i:1719969 original size:30 final size:32
Alignment explanation
Indices: 1719910--1719979 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 32
1719900 GATTTAGTTA
* * * *
1719910 GTGACCAAATTATAAGATTTTGTAAAGTTT-G
1 GTGACTAAAGTATAAGACTTTGAAAAGTTTAG
1719941 GTGACTAAAGTATAA-ACTTTGAAAAGTTTAG
1 GTGACTAAAGTATAAGACTTTGAAAAGTTTAG
1719972 G-GACTAAA
1 GTGACTAAA
1719980 ATTGTAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 19 0.56
31 15 0.44
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (32 bp):
GTGACTAAAGTATAAGACTTTGAAAAGTTTAG
Found at i:1721785 original size:28 final size:29
Alignment explanation
Indices: 1721751--1721813 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
1721741 ACATGAGAAA
* *
1721751 TGATATA-AGCTATATGATAT-TATCTATG
1 TGATATATA-CTATATGATATGAACCTATG
*
1721779 TGATATATATTATATGATATGAACCTATG
1 TGATATATACTATATGATATGAACCTATG
1721808 TGATAT
1 TGATAT
1721814 GGGTTATATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 17 0.57
29 13 0.43
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (29 bp):
TGATATATACTATATGATATGAACCTATG
Found at i:1721820 original size:29 final size:28
Alignment explanation
Indices: 1721761--1721824 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
1721751 TGATATAAGC
* * *
1721761 TATATGATATTATCTATGTGATATATAT
1 TATATGATATAACCTATGTGATATAGAT
* *
1721789 TATATGATATGAACCTATGTGATATGGGT
1 TATATGATAT-AACCTATGTGATATAGAT
1721818 TATATGA
1 TATATGA
1721825 CAATAATGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 10 0.33
29 20 0.67
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (28 bp):
TATATGATATAACCTATGTGATATAGAT
Found at i:1722001 original size:22 final size:22
Alignment explanation
Indices: 1721971--1722034 Score: 92
Period size: 22 Copynumber: 2.9 Consensus size: 22
1721961 AGTCGAGGGT
*
1721971 TATATAGGTCATTCGGGACATA
1 TATATAGGTCCTTCGGGACATA
* *
1721993 TATAGAGGTCCTTCAGGACATA
1 TATATAGGTCCTTCGGGACATA
*
1722015 TACATAGGTCCTTCGGGACA
1 TATATAGGTCCTTCGGGACA
1722035 AATTTCACAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (22 bp):
TATATAGGTCCTTCGGGACATA
Found at i:1741078 original size:18 final size:18
Alignment explanation
Indices: 1741057--1741098 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
1741047 AAAGTAAAAT
*
1741057 AAAAGGGGGAAATAAACA
1 AAAAGGGGGAAAGAAACA
1741075 AAAA-GGGGAAAGAAACA
1 AAAAGGGGGAAAGAAACA
1741092 AAAAGGG
1 AAAAGGG
1741099 TAAAGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.62, C:0.05, G:0.31, T:0.02
Consensus pattern (18 bp):
AAAAGGGGGAAAGAAACA
Found at i:1741082 original size:17 final size:17
Alignment explanation
Indices: 1741057--1741103 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
1741047 AAAGTAAAAT
* *
1741057 AAAAGGGGGAAATAAAC
1 AAAAAGGGGAAAGAAAC
1741074 AAAAAGGGGAAAGAAAC
1 AAAAAGGGGAAAGAAAC
*
1741091 AAAAAGGGTAAAG
1 AAAAAGGGGAAAG
1741104 TATATAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.62, C:0.04, G:0.30, T:0.04
Consensus pattern (17 bp):
AAAAAGGGGAAAGAAAC
Found at i:1742431 original size:16 final size:15
Alignment explanation
Indices: 1742399--1742441 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
1742389 ATCCATGAAT
1742399 TTTAATTTTTTTCAA
1 TTTAATTTTTTTCAA
1742414 TTTAATCTTGTTTT-AA
1 TTTAAT-TT-TTTTCAA
*
1742430 TTTGATTTTTTT
1 TTTAATTTTTTT
1742442 TTTCATTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 4 0.16
15 8 0.32
16 9 0.36
17 4 0.16
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (15 bp):
TTTAATTTTTTTCAA
Found at i:1754829 original size:15 final size:15
Alignment explanation
Indices: 1754786--1754829 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
1754776 TTTCTAAGTC
*
1754786 AAAGAAGAAAAAGAAA
1 AAAG-AGAAAAACAAA
1754802 AAAGA-AAAGAACAAA
1 AAAGAGAAA-AACAAA
1754817 AAAGAGAAAAACA
1 AAAGAGAAAAACA
1754830 TTTAGGGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 3 0.12
15 15 0.60
16 7 0.28
ACGTcount: A:0.80, C:0.05, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAGAGAAAAACAAA
Found at i:1755921 original size:115 final size:115
Alignment explanation
Indices: 1755784--1755995 Score: 334
Period size: 115 Copynumber: 1.8 Consensus size: 115
1755774 TCATCTTTAT
* * * * *
1755784 ATTGGATTTCAACTTCACGATGAAGGATATCCAATTTGAGGCTCAACTTCATGACGAATGGGTCT
1 ATTGGATTTCAACTTCACGATGAAGGATATCCAATTCGAGGCTCAACTTCACGACGAAAGGGCCA
*
1755849 TCCACGATTTTAACTTCACGACAAAGGATATCGTGTCCATCAGCAAAATC
66 TACACGATTTTAACTTCACGACAAAGGATATCGTGTCCATCAGCAAAATC
* * *
1755899 ATTGGATTTTAACTTCACGATGAATGATATCCAATTCGAGGCTCAACTTTACGACGAAAGGGCCA
1 ATTGGATTTCAACTTCACGATGAAGGATATCCAATTCGAGGCTCAACTTCACGACGAAAGGGCCA
*
1755964 TACACGATTTTAACTTCACGACGAAGGATATC
66 TACACGATTTTAACTTCACGACAAAGGATATC
1755996 CAATTCGAGA
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
115 87 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.28
Consensus pattern (115 bp):
ATTGGATTTCAACTTCACGATGAAGGATATCCAATTCGAGGCTCAACTTCACGACGAAAGGGCCA
TACACGATTTTAACTTCACGACAAAGGATATCGTGTCCATCAGCAAAATC
Found at i:1756010 original size:66 final size:66
Alignment explanation
Indices: 1755903--1756060 Score: 219
Period size: 66 Copynumber: 2.4 Consensus size: 66
1755893 AAAATCATTG
* * *
1755903 GATTTTAACTTCACGATGAATGATATCCAATTCGAGGCTCAACTTTACGACGAAAGGGCCATAC-
1 GATTTTAACTTCACGAAGAATGATATCCAATTCGAGACTCAACTTCACGACGAAAGGGCCAT-CT
1755967 AC
65 AC
* * * *
1755969 GATTTTAACTTCACGACGAAGGATATCCAATTCGAGACTCAACTTCACGACGAAGGGGTCATCTA
1 GATTTTAACTTCACGAAGAATGATATCCAATTCGAGACTCAACTTCACGACGAAAGGGCCATCTA
*
1756034 T
66 C
*
1756035 GATTTCAACTTCACGAAGAATGATAT
1 GATTTTAACTTCACGAAGAATGATAT
1756061 TGTGTCCATT
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
65 1 0.01
66 80 0.99
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.27
Consensus pattern (66 bp):
GATTTTAACTTCACGAAGAATGATATCCAATTCGAGACTCAACTTCACGACGAAAGGGCCATCTA
C
Found at i:1756014 original size:181 final size:182
Alignment explanation
Indices: 1755788--1756181 Score: 497
Period size: 181 Copynumber: 2.1 Consensus size: 182
1755778 CTTTATATTG
* * * * * * *
1755788 GATTTCAACTTCACGATGAAGGATATCCAATTTGAGGCTCAACTTCATGACGAATGGGTCTTCCA
1 GATTTTAACTTCACGACGAAGGATATCCAATTCGAGACTCAACTTCACGACGAAGGGGTCATCCA
* * *
1755853 CGATTTTAACTTCACGACA-AAGGATATCGTGTCCATCAGCAAAATC-ATTGGATTTTAACTTCA
66 CGATTTCAACTTCACGA-AGAAGGATATCGTGTCCATCAGCAAAATCTATTAGATTTCAACTTCA
* * * *
1755916 CGATGAATGATATCCAATTCGAGGCTCAACTTTACGACGAAAGGGCCATACAC
130 CGACGAAGGATATCCAATTCGAGGCTCAACTTCACGAAGAAAGGGCCATACAC
*
1755969 GATTTTAACTTCACGACGAAGGATATCCAATTCGAGACTCAACTTCACGACGAAGGGGTCATCTA
1 GATTTTAACTTCACGACGAAGGATATCCAATTCGAGACTCAACTTCACGACGAAGGGGTCATCCA
* * * * *
1756034 TGATTTCAACTTCACGAAGAATGATATTGTGTCCATTAGCAACATCTTTAAATTAGATTTCAACT
66 CGATTTCAACTTCACGAAGAAGGATATCGTGTCCATCAGCAAAATC--T--ATTAGATTTCAACT
* * *
1756099 TCACGACGAAGGATATCCAATTCGAGGCTCAACTTCACGAAGAAGGGGTCATCCAC
127 TCACGACGAAGGATATCCAATTCGAGGCTCAACTTCACGAAGAAAGGGCCATACAC
*
1756155 G-TTTTCAACTTCACGACGAATGATATC
1 GATTTT-AACTTCACGACGAAGGATATC
1756182 TTGTCCATAA
Statistics
Matches: 182, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
180 1 0.01
181 95 0.52
185 4 0.02
186 82 0.45
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (182 bp):
GATTTTAACTTCACGACGAAGGATATCCAATTCGAGACTCAACTTCACGACGAAGGGGTCATCCA
CGATTTCAACTTCACGAAGAAGGATATCGTGTCCATCAGCAAAATCTATTAGATTTCAACTTCAC
GACGAAGGATATCCAATTCGAGGCTCAACTTCACGAAGAAAGGGCCATACAC
Found at i:1756187 original size:120 final size:123
Alignment explanation
Indices: 1755969--1756244 Score: 407
Period size: 120 Copynumber: 2.3 Consensus size: 123
1755959 GGCCATACAC
* * *
1755969 GATTTTAACTTCACGACGAAGGATATCCAATTCGAGACTCAACTTCACGACGAAGGGGTCATCTA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCGAGACTCAACTTCACGAAGAAGGGGTCATCCA
* *
1756034 TGATTTCAACTTCACGAAGAATGATATTGTGTCCATTAGCAACAT-C-T-TTAAATTA
66 CGATTTCAACTTCACGAAGAATGATATTGTGTCCATAAGCAACATCCATCTTAAATTA
*
1756089 GATTTCAACTTCACGACGAAGGATATCCAATTCGAGGCTCAACTTCACGAAGAAGGGGTCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCGAGACTCAACTTCACGAAGAAGGGGTCATCCA
* * * *
1756154 CGTTTTCAACTTCACGACGAATGATATCT-TGTCCATAAGCAACATCCATCCTTATATTG
66 CGATTTCAACTTCACGAAGAATGATAT-TGTGTCCATAAGCAACATCCAT-CTTAAATTA
*
1756213 GATTTCAACTTCACGATGAAGGATATCCAATT
1 GATTTCAACTTCACGACGAAGGATATCCAATT
1756245 TAAAGCTTAA
Statistics
Matches: 140, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
120 100 0.71
121 2 0.01
122 1 0.01
124 37 0.26
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (123 bp):
GATTTCAACTTCACGACGAAGGATATCCAATTCGAGACTCAACTTCACGAAGAAGGGGTCATCCA
CGATTTCAACTTCACGAAGAATGATATTGTGTCCATAAGCAACATCCATCTTAAATTA
Found at i:1757713 original size:30 final size:30
Alignment explanation
Indices: 1757679--1757739 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
1757669 TCTTCTAGTC
*
1757679 TCTATTAATACTATTTTAATCCTTTAATTT
1 TCTATTAATACTATTTTAATACTTTAATTT
** * *
1757709 TCTATTTGTGCTATTTTATTACTTTAATTT
1 TCTATTAATACTATTTTAATACTTTAATTT
1757739 T
1 T
1757740 TTCCTTTTGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.11, G:0.03, T:0.61
Consensus pattern (30 bp):
TCTATTAATACTATTTTAATACTTTAATTT
Found at i:1757847 original size:16 final size:14
Alignment explanation
Indices: 1757818--1757859 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 14
1757808 ATCTATGAAT
1757818 TTTAATTTTTTTAA
1 TTTAATTTTTTTAA
1757832 TTTAATCTTGTTTTAA
1 TTTAAT-TT-TTTTAA
*
1757848 TTTGATTTTTTT
1 TTTAATTTTTTT
1757860 CATTCCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 10 0.40
15 4 0.16
16 11 0.44
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.71
Consensus pattern (14 bp):
TTTAATTTTTTTAA
Found at i:1758321 original size:3 final size:3
Alignment explanation
Indices: 1758315--1758391 Score: 52
Period size: 3 Copynumber: 25.3 Consensus size: 3
1758305 CTTCTTGTAG
* * *
1758315 CTT CTT CTT CTT CTT CTT CTT TTT GCAGT -TT CTT -TT CTT CTT TTT
1 CTT CTT CTT CTT CTT CTT CTT CTT -C-TT CTT CTT CTT CTT CTT CTT
* *
1758360 CTT GCATT -TT CTT ATT CTT ATT CTT CTT CTT C
1 CTT -C-TT CTT CTT CTT CTT CTT CTT CTT CTT C
1758392 AAAACTCTAA
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
2 5 0.09
3 48 0.84
4 1 0.02
5 3 0.05
ACGTcount: A:0.05, C:0.25, G:0.04, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:1759302 original size:22 final size:23
Alignment explanation
Indices: 1759277--1759339 Score: 83
Period size: 22 Copynumber: 2.7 Consensus size: 23
1759267 AGATTTGAAG
*
1759277 AAGAAGAATAAGAATAAGCTG-C
1 AAGAAGAATAAGAAGAAGCTGAC
1759299 AAGAAGAATAAGAAAAGAAGCTGAC
1 AAGAAGAATAAG--AAGAAGCTGAC
*
1759324 ACGAAGAATAAGAAGA
1 AAGAAGAATAAGAAGA
1759340 GGAAGAAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
22 12 0.33
23 4 0.11
24 8 0.22
25 12 0.33
ACGTcount: A:0.59, C:0.08, G:0.24, T:0.10
Consensus pattern (23 bp):
AAGAAGAATAAGAAGAAGCTGAC
Found at i:1759329 original size:25 final size:24
Alignment explanation
Indices: 1759277--1759337 Score: 81
Period size: 25 Copynumber: 2.6 Consensus size: 24
1759267 AGATTTGAAG
*
1759277 AAGAAGAATAAG--AATAAGCTGC
1 AAGAAGAATAAGAAAAGAAGCTGC
1759299 AAGAAGAATAAGAAAAGAAGCTGAC
1 AAGAAGAATAAGAAAAGAAGCTG-C
*
1759324 ACGAAGAATAAGAA
1 AAGAAGAATAAGAA
1759338 GAGGAAGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 12 0.35
24 8 0.24
25 14 0.41
ACGTcount: A:0.59, C:0.08, G:0.23, T:0.10
Consensus pattern (24 bp):
AAGAAGAATAAGAAAAGAAGCTGC
Found at i:1759337 original size:34 final size:34
Alignment explanation
Indices: 1759299--1759372 Score: 130
Period size: 34 Copynumber: 2.2 Consensus size: 34
1759289 AATAAGCTGC
*
1759299 AAGAAGAATAAGAAAAGAAGCTGACACGAAGAAT
1 AAGAAGAAGAAGAAAAGAAGCTGACACGAAGAAT
*
1759333 AAGAAGAGGAAGAAAAGAAGCTGACACGAAGAAT
1 AAGAAGAAGAAGAAAAGAAGCTGACACGAAGAAT
1759367 AAGAAG
1 AAGAAG
1759373 CTACAAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.58, C:0.08, G:0.27, T:0.07
Consensus pattern (34 bp):
AAGAAGAAGAAGAAAAGAAGCTGACACGAAGAAT
Found at i:1759338 original size:20 final size:20
Alignment explanation
Indices: 1759308--1759387 Score: 79
Period size: 19 Copynumber: 4.5 Consensus size: 20
1759298 CAAGAAGAAT
1759308 AAGAA-AAGAAGCTGACACG
1 AAGAATAAGAAGCTGACACG
*
1759327 AAGAATAAGAA---G--AGG
1 AAGAATAAGAAGCTGACACG
1759342 AAGAA-AAGAAGCTGACACG
1 AAGAATAAGAAGCTGACACG
*
1759361 AAGAATAAGAAGCT-ACAAG
1 AAGAATAAGAAGCTGACACG
1759380 AA-AATAAG
1 AAGAATAAG
1759388 TTGTCACGTC
Statistics
Matches: 51, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
14 5 0.10
15 7 0.14
17 2 0.04
18 6 0.12
19 18 0.35
20 13 0.25
ACGTcount: A:0.57, C:0.10, G:0.25, T:0.07
Consensus pattern (20 bp):
AAGAATAAGAAGCTGACACG
Found at i:1763432 original size:331 final size:332
Alignment explanation
Indices: 1762830--1763492 Score: 1319
Period size: 331 Copynumber: 2.0 Consensus size: 332
1762820 CGGCTCATTC
1762830 AACTCTTTCAATGCCGGCTTCATTGCGGTGGTCTGTAGAGGATGCTGCTGAGAGACGGTGTCGCT
1 AACTCTTTCAATGCCGGCTTCATTGCGGTGGTCTGTAGAGGATGCTGCTGAGAGACGGTGTCGCT
1762895 GGGTATTTCTTGCATGAGCTCGCGGCGGTGCCGAGAGCTCTCACCACAGCTTACTGCGTCGAAGA
66 GGGTATTTCTTGCATGAGCTCGCGGCGGTGCCGAGAGCTCTCACCACAGCTTACTGCGTCGAAGA
1762960 TTTTCCTTCGGAATGCGGCGCCGGAGAAGGTTGTCCATAATCTGATGTTGTTGCCGGTAGTGCTG
131 TTTTCCTTCGGAATGCGGCGCCGGAGAAGGTTGTCCATAATCTGATGTTGTTGCCGGTAGTGCTG
1763025 GTAGTGGAAGGGCGATCGATGGCTATTGATCCGATGTCGTTTCTGTGACACTTGGCCATTGTTTT
196 GTAGTGGAAGGGCGATCGATGGCTATTGATCCGATGTCGTTTCTGTGACACTTGGCCATTGTTTT
1763090 TGTTGCAAAAATCCAACTTTACATTTGCAAAAGAAAAAAAAAAGGCAGCTTTGAGAGAA-TGCAA
261 TGTTGCAAAAATCCAACTTTACATTTGCAAAAGAAAAAAAAAAGGCAGCTTTGAGAGAAGTGCAA
1763154 TTGAAGA
326 TTGAAGA
1763161 AACTCTTTCAATGCCGGCTTCATTGCGGTGGTCTGTAGAGGATGCTGCTGAGAGACGGTGTCGCT
1 AACTCTTTCAATGCCGGCTTCATTGCGGTGGTCTGTAGAGGATGCTGCTGAGAGACGGTGTCGCT
1763226 GGGTATTTCTTGCATGAGCTCGCGGCGGTGCCGAGAGCTCTCACCACAGCTTACTGCGTCGAAGA
66 GGGTATTTCTTGCATGAGCTCGCGGCGGTGCCGAGAGCTCTCACCACAGCTTACTGCGTCGAAGA
1763291 TTTTCCTTCGGAATGCGGCGCCGGAGAAGGTTGTCCATAATCTGATGTTGTTGCCGGTAGTGCTG
131 TTTTCCTTCGGAATGCGGCGCCGGAGAAGGTTGTCCATAATCTGATGTTGTTGCCGGTAGTGCTG
1763356 GTAGTGGAAGGGCGATCGATGGCTATTGATCCGATGTCGTTTCTGTGACACTTGGCCATTGTTTT
196 GTAGTGGAAGGGCGATCGATGGCTATTGATCCGATGTCGTTTCTGTGACACTTGGCCATTGTTTT
1763421 TGTTGCAAAAATCCAACTTTACATTTGCAAAAGAAAAAAAAAAGGCAGCTTTGAGAGAAGTGCAA
261 TGTTGCAAAAATCCAACTTTACATTTGCAAAAGAAAAAAAAAAGGCAGCTTTGAGAGAAGTGCAA
1763486 TTGAAGA
326 TTGAAGA
1763493 TTGAGAGGAA
Statistics
Matches: 331, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
331 319 0.96
332 12 0.04
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (332 bp):
AACTCTTTCAATGCCGGCTTCATTGCGGTGGTCTGTAGAGGATGCTGCTGAGAGACGGTGTCGCT
GGGTATTTCTTGCATGAGCTCGCGGCGGTGCCGAGAGCTCTCACCACAGCTTACTGCGTCGAAGA
TTTTCCTTCGGAATGCGGCGCCGGAGAAGGTTGTCCATAATCTGATGTTGTTGCCGGTAGTGCTG
GTAGTGGAAGGGCGATCGATGGCTATTGATCCGATGTCGTTTCTGTGACACTTGGCCATTGTTTT
TGTTGCAAAAATCCAACTTTACATTTGCAAAAGAAAAAAAAAAGGCAGCTTTGAGAGAAGTGCAA
TTGAAGA
Found at i:1764318 original size:32 final size:32
Alignment explanation
Indices: 1764268--1764328 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
1764258 GGTGGGGGAG
*
1764268 AAGGCGCGTCGCATGAAACGT-GCCTCCCACCT
1 AAGGCGCGTCGCAAGAAAC-TCGCCTCCCACCT
1764300 AAGGCGCGTC-CTAAGAAACTCGCCTCCCA
1 AAGGCGCGTCGC-AAGAAACTCGCCTCCCA
1764329 TGAATGATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 2 0.08
32 24 0.92
ACGTcount: A:0.25, C:0.38, G:0.23, T:0.15
Consensus pattern (32 bp):
AAGGCGCGTCGCAAGAAACTCGCCTCCCACCT
Found at i:1767722 original size:83 final size:81
Alignment explanation
Indices: 1767569--1767848 Score: 312
Period size: 83 Copynumber: 3.4 Consensus size: 81
1767559 TTATGTGAAG
* * *
1767569 TGGCAGAGATTCTCTGAATAATAATGGAAAATGCTTTCCCCGAAATTCGT-ATTTCA-TTTCGTA
1 TGGCAGAGATTCTCTGAATAATAATGGAAAACGATTTCCCCGAAA--CGTCATTTCATTTTAG-A
*
1767632 TGGGATGGAATACTCTGACA
63 T-GGATGGAACACTCTGACA
** * * *
1767652 TGATAGAGATTCTCTGAATAATAATGGAAAACGAATTCCCCGGAACGTGCCTTTCATTTTAGATG
1 TGGCAGAGATTCTCTGAATAATAATGGAAAACGATTTCCCCGAAACGT-CATTTCATTTTAGATG
1767717 TGATGGAACACTCTGACA
65 -GATGGAACACTCTGACA
* ** * *
1767735 TGGCAAAGATTCTCTGAATAATAATGGAAAACGATTTCCTTGAAACGATCATTTTATTTCAGATA
1 TGGCAGAGATTCTCTGAATAATAATGGAAAACGATTTCCCCGAAACG-TCATTTCATTTTAGAT-
* *
1767800 GGATGAAACACTCTAACA
64 GGATGGAACACTCTGACA
* *
1767818 TGGCATAGTTTCTCTGAATAATAATGGAAAA
1 TGGCAGAGATTCTCTGAATAATAATGGAAAA
1767849 TGCTTCTCCT
Statistics
Matches: 168, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
81 3 0.02
82 1 0.01
83 158 0.94
84 6 0.04
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (81 bp):
TGGCAGAGATTCTCTGAATAATAATGGAAAACGATTTCCCCGAAACGTCATTTCATTTTAGATGG
ATGGAACACTCTGACA
Found at i:1767862 original size:83 final size:80
Alignment explanation
Indices: 1767569--1767883 Score: 310
Period size: 83 Copynumber: 3.8 Consensus size: 80
1767559 TTATGTGAAG
* *
1767569 TGGCAGAGATTCTCTGAATAATAATGGAAAATGCTTTCCCCGAAATTCGT-ATTTCATTTC-GTA
1 TGGCAGAGATTCTCTGAATAATAATGGAAAACGATTT-CCCGAAA--CGTCATTTCATTTCAG-A
*
1767632 TGGGATGGAATACTCTGACA
62 T-GGATGGAACACTCTGACA
** * * * *
1767652 TGATAGAGATTCTCTGAATAATAATGGAAAACGAATTCCCCGGAACGTGCCTTTCATTTTAGATG
1 TGGCAGAGATTCTCTGAATAATAATGGAAAACG-ATTTCCCGAAACGT-CATTTCATTTCAGATG
1767717 TGATGGAACACTCTGACA
64 -GATGGAACACTCTGACA
* * *
1767735 TGGCAAAGATTCTCTGAATAATAATGGAAAACGATTTCCTTGAAACGATCATTTTATTTCAGATA
1 TGGCAGAGATTCTCTGAATAATAATGGAAAACGATTTCC-CGAAACG-TCATTTCATTTCAGAT-
* *
1767800 GGATGAAACACTCTAACA
63 GGATGGAACACTCTGACA
* * * * * * *
1767818 TGGCATAGTTTCTCTGAATAATAATGGAAAATGCTTCTCCTGAAACGTGCCTTTCATTTCGGATG
1 TGGCAGAGATTCTCTGAATAATAATGGAAAACGATT-TCCCGAAACGT-CATTTCATTTCAGATG
1767883 G
64 G
1767884 GATTGATCAC
Statistics
Matches: 195, Mismatches: 27, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
81 3 0.02
82 9 0.05
83 175 0.90
84 8 0.04
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.31
Consensus pattern (80 bp):
TGGCAGAGATTCTCTGAATAATAATGGAAAACGATTTCCCGAAACGTCATTTCATTTCAGATGGA
TGGAACACTCTGACA
Found at i:1767867 original size:166 final size:165
Alignment explanation
Indices: 1767569--1767876 Score: 388
Period size: 166 Copynumber: 1.9 Consensus size: 165
1767559 TTATGTGAAG
* * * *
1767569 TGGCAGAGATTCTCTGAATAATAATGGAAAATGCTTTCCCCGAAATTCGTATTTCATTTCGTATG
1 TGGCAAAGATTCTCTGAATAATAATGGAAAACGATTTCCCCGAAA-TCGTATTTCATTTCGTATA
* * * * *
1767634 GGATGGAATACTCTGACATGATAGAGATTCTCTGAATAATAATGGAAAACGAATTCCCCGGAACG
65 GGATGAAACACTCTAACATGACAGAGATTCTCTGAATAATAATGGAAAACGAATTCCCCGAAACG
1767699 TGCCTTTCATTTTAGATGTGATGGAACACTCTGACA
130 TGCCTTTCATTTTAGATGTGATGGAACACTCTGACA
** *
1767735 TGGCAAAGATTCTCTGAATAATAATGGAAAACGATTTCCTTGAAA-CGATCATTTTATTTCAG-A
1 TGGCAAAGATTCTCTGAATAATAATGGAAAACGATTTCCCCGAAATCG-T-ATTTCATTTC-GTA
* * * * * *
1767798 TAGGATGAAACACTCTAACATGGCATAGTTTCTCTGAATAATAATGGAAAATG-CTTCTCCTGAA
63 TAGGATGAAACACTCTAACATGACAGAGATTCTCTGAATAATAATGGAAAACGAATTC-CCCGAA
1767862 ACGTGCCTTTCATTT
127 ACGTGCCTTTCATTT
1767877 CGGATGGGAT
Statistics
Matches: 120, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
164 2 0.02
165 4 0.03
166 113 0.94
167 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (165 bp):
TGGCAAAGATTCTCTGAATAATAATGGAAAACGATTTCCCCGAAATCGTATTTCATTTCGTATAG
GATGAAACACTCTAACATGACAGAGATTCTCTGAATAATAATGGAAAACGAATTCCCCGAAACGT
GCCTTTCATTTTAGATGTGATGGAACACTCTGACA
Found at i:1767913 original size:166 final size:164
Alignment explanation
Indices: 1767571--1767931 Score: 370
Period size: 166 Copynumber: 2.2 Consensus size: 164
1767561 ATGTGAAGTG
* * *
1767571 GCAGAGATTCTCTGAATAATAATGGAAAATGCTTTCCCCGAAATTCGTATTTCATTTCGTATGGG
1 GCAGAGATTCTCTGAATAATAATGGAAAACGATTTCCCCGAAA-TCGTATTTCATTTCGTATAGG
* * * * *
1767636 ATGGAATACTCTGACATGATAGAGATTCTCTGAATAATAATGGAAAACGAATTCCCCGGAACGTG
65 ATGAAACACTCTAACATGACAGAGATTCTCTGAATAATAATGGAAAACGAATTCCCCGAAACGTG
* * * *
1767701 CCTTTCATTTTAGATGTGATGGAACACTCTGACAT
130 CCTTTCATTTCAGATGGGATGGAACACTATGAAAT
* ** *
1767736 GGCAAAGATTCTCTGAATAATAATGGAAAACGATTTCCTTGAAA-CGATCATTTTATTTCAG-AT
1 -GCAGAGATTCTCTGAATAATAATGGAAAACGATTTCCCCGAAATCG-T-ATTTCATTTC-GTAT
* * * * * *
1767799 AGGATGAAACACTCTAACATGGCATAGTTTCTCTGAATAATAATGGAAAATG-CTTCTCCTGAAA
62 AGGATGAAACACTCTAACATGACAGAGATTCTCTGAATAATAATGGAAAACGAATTC-CCCGAAA
* * * *
1767863 CGTGCCTTTCATTTCGGATGGGATTGATCACTATTATAAT
126 CGTGCCTTTCATTTCAGATGGGATGGAACACTATGA-AAT
* *
1767903 -CTAGAGATTCTCTGAATTATAATGAAAAA
1 GC-AGAGATTCTCTGAATAATAATGGAAAA
1767932 ATACTTCCCA
Statistics
Matches: 160, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
164 2 0.01
165 5 0.03
166 150 0.94
167 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (164 bp):
GCAGAGATTCTCTGAATAATAATGGAAAACGATTTCCCCGAAATCGTATTTCATTTCGTATAGGA
TGAAACACTCTAACATGACAGAGATTCTCTGAATAATAATGGAAAACGAATTCCCCGAAACGTGC
CTTTCATTTCAGATGGGATGGAACACTATGAAAT
Found at i:1767914 original size:83 final size:84
Alignment explanation
Indices: 1767573--1768015 Score: 276
Period size: 83 Copynumber: 5.3 Consensus size: 84
1767563 GTGAAGTGGC
* *
1767573 AGAGATTCTCTGAATAATAATGGAAAATGCTT-TCCCCGAAATTCGT--ATTTCATTTC-GTATG
1 AGAGATTCTCTGAATAATAATGGAAAATGCTTCT-CCTGAAA--CGTGCCTTTCATTTCAG-ATG
* * * * *
1767634 GGATGGAAT-ACTCTGACATGAT
62 GGATTGAATCACTATTAAATGCT
* * * * * *
1767656 AGAGATTCTCTGAATAATAATGGAAAACGAATTC-CCCGGAACGTGCCTTTCATTTTAGATGTGA
1 AGAGATTCTCTGAATAATAATGGAAAATG-CTTCTCCTGAAACGTGCCTTTCATTTCAGATGGGA
* * * *
1767720 TGGAA-CACTCTGACATGGC-
65 TTGAATCACTATTAAAT-GCT
* * * * * *
1767739 AAAGATTCTCTGAATAATAATGGAAAACGATT-TCCTTGAAACGAT-CATTTTATTTCAGATAGG
1 AGAGATTCTCTGAATAATAATGGAAAATGCTTCTCC-TGAAACG-TGCCTTTCATTTCAGATGGG
* *
1767802 A-TGAAACACT-CTAACATGGC-
64 ATTGAATCACTATTAA-AT-GCT
* * *
1767822 ATAGTTTCTCTGAATAATAATGGAAAATGCTTCTCCTGAAACGTGCCTTTCATTTCGGATGGGAT
1 AGAGATTCTCTGAATAATAATGGAAAATGCTTCTCCTGAAACGTGCCTTTCATTTCAGATGGGAT
1767887 TG-ATCACTATTATAAT-CT
66 TGAATCACTATTA-AATGCT
* * * * * *
1767905 AGAGATTCTCTGAATTATAATGAAAAAATACTTC-CCATGGAACGCGCCTTTCATTTTTA-ATGG
1 AGAGATTCTCTGAATAATAATG-GAAAATGCTTCTCC-TGAAACGTGCCTTTCA-TTTCAGATGG
* *
1767968 GA-TGAATCACAATTATAATTC-
63 GATTGAATCACTATTA-AATGCT
* *
1767989 ATAGATTCTCTGAATAATAATGAAAAA
1 AGAGATTCTCTGAATAATAATGGAAAA
1768016 ATGCATCCAT
Statistics
Matches: 296, Mismatches: 41, Indels: 46
0.77 0.11 0.12
Matches are distributed among these distances:
81 3 0.01
82 11 0.04
83 201 0.68
84 76 0.26
85 5 0.02
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Consensus pattern (84 bp):
AGAGATTCTCTGAATAATAATGGAAAATGCTTCTCCTGAAACGTGCCTTTCATTTCAGATGGGAT
TGAATCACTATTAAATGCT
Found at i:1767960 original size:84 final size:84
Alignment explanation
Indices: 1767827--1768017 Score: 237
Period size: 84 Copynumber: 2.3 Consensus size: 84
1767817 ATGGCATAGT
* * * *
1767827 TTCTCTGAATAATAATG-GAAAATGCTTCTCCTGAAACGTGCCTTTCATTTCGGATGGGATTG-A
1 TTCTCTGAATAATAATGAAAAAATACTTCTCCTGAAACGCGCCTTTCATTTCGAATGGGA-TGAA
*
1767890 TCACTATTATAA-TCTAGAGA
65 TCACAATTATAATTC-AGAGA
* * **
1767910 TTCTCTGAATTATAATGAAAAAATACTTC-CCATGGAACGCGCCTTTCATTTTTAATGGGATGAA
1 TTCTCTGAATAATAATGAAAAAATACTTCTCC-TGAAACGCGCCTTTCATTTCGAATGGGATGAA
*
1767974 TCACAATTATAATTCATAGA
65 TCACAATTATAATTCAGAGA
1767994 TTCTCTGAATAATAATGAAAAAAT
1 TTCTCTGAATAATAATGAAAAAAT
1768018 GCATCCATTG
Statistics
Matches: 93, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
83 20 0.22
84 71 0.76
85 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (84 bp):
TTCTCTGAATAATAATGAAAAAATACTTCTCCTGAAACGCGCCTTTCATTTCGAATGGGATGAAT
CACAATTATAATTCAGAGA
Found at i:1768038 original size:84 final size:82
Alignment explanation
Indices: 1767821--1768040 Score: 214
Period size: 84 Copynumber: 2.6 Consensus size: 82
1767811 TCTAACATGG
* * * * *
1767821 CATAGTTTCTCTGAATAATAATG-GAAAATGCTTCTC-CTGAAACGTGCCTTTCATTTCGGATGG
1 CATAGATTCTCTGAATAATAATGAAAAAATGCTTC-CATTGAAGC-TGCCTTTCATTTCGAATGG
*
1767884 GATTGATCACTATTATAAT
64 GATTGATCACAATTATAAT
* * * * **
1767903 CTAGAGATTCTCTGAATTATAATGAAAAAATACTTCCCATGGAACGC-GCCTTTCATTTTTAATG
1 C-ATAGATTCTCTGAATAATAATGAAAAAATGCTT-CCATTGAA-GCTGCCTTTCATTTCGAATG
1767967 GGA-TGAATCACAATTATAATT
63 GGATTG-ATCACAATTATAA-T
* *
1767988 CATAGATTCTCTGAATAATAATGAAAAAATGCATCCATTGTAGCATGCCTTTC
1 CATAGATTCTCTGAATAATAATGAAAAAATGCTTCCATTGAAGC-TGCCTTTC
1768041 CTTATCATTA
Statistics
Matches: 111, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
82 3 0.03
83 27 0.24
84 74 0.67
85 6 0.05
86 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (82 bp):
CATAGATTCTCTGAATAATAATGAAAAAATGCTTCCATTGAAGCTGCCTTTCATTTCGAATGGGA
TTGATCACAATTATAAT
Done.