Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_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: 4568288
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 24
Found at i:1424501 original size:19 final size:19
Alignment explanation
Indices: 1424447--1424503 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 19
1424437 GAGATTATCA
* *
1424447 AACCTAAAATCTGGATTCA
1 AACCTAAAATCTGGTTTCC
* *
1424466 AACTTAAAATCTAGTTTCC
1 AACCTAAAATCTGGTTTCC
*
1424485 AACCTAAAATTTGGTTTCC
1 AACCTAAAATCTGGTTTCC
1424504 CCATCACATG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (19 bp):
AACCTAAAATCTGGTTTCC
Found at i:1426394 original size:23 final size:23
Alignment explanation
Indices: 1426364--1426420 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
1426354 CGCTAAACGT
*
1426364 ACATTAAATGAACGCATTCACGA
1 ACATTAAATGAACACATTCACGA
* *
1426387 ACATTAAACGAACACGTTCACGA
1 ACATTAAATGAACACATTCACGA
*
1426410 ACGTTAAATGA
1 ACATTAAATGA
1426421 CCGAACACGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.21
Consensus pattern (23 bp):
ACATTAAATGAACACATTCACGA
Found at i:1430769 original size:37 final size:38
Alignment explanation
Indices: 1430709--1430813 Score: 149
Period size: 37 Copynumber: 2.7 Consensus size: 38
1430699 TTAGATCAAA
*
1430709 TATTAACTACATAGATACTAATTAATATTTGATCTAATCAT
1 TATTAAC-AAATA-ATA-TAATTAATATTTGATCTAATCAT
*
1430750 TATTAA-AAATAATATAATTAATATTTGATCTAATTAT
1 TATTAACAAATAATATAATTAATATTTGATCTAATCAT
*
1430787 TATTAACAAATAATGTAATTAATATTT
1 TATTAACAAATAATATAATTAATATTT
1430814 TATTTTAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
37 28 0.47
38 22 0.37
39 4 0.07
41 6 0.10
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.44
Consensus pattern (38 bp):
TATTAACAAATAATATAATTAATATTTGATCTAATCAT
Found at i:1432839 original size:21 final size:19
Alignment explanation
Indices: 1432802--1432840 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
1432792 ATTATTAATT
1432802 ATATTATTCACACATTCTC
1 ATATTATTCACACATTCTC
*
1432821 ATATTCATATCACATATTCT
1 ATATT-AT-TCACACATTCT
1432841 TGTTTTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATTATTCACACATTCTC
Found at i:1436690 original size:21 final size:19
Alignment explanation
Indices: 1436653--1436691 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
1436643 ATTATTAATT
1436653 ATATTATTCACACATTCTC
1 ATATTATTCACACATTCTC
*
1436672 ATATTCATATCACATATTCT
1 ATATT-AT-TCACACATTCT
1436692 TGTTTTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATTATTCACACATTCTC
Found at i:1444416 original size:2 final size:2
Alignment explanation
Indices: 1444409--1444438 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1444399 TAATGAAATA
1444409 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
1444439 GTGTGTGTGT
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:1444443 original size:2 final size:2
Alignment explanation
Indices: 1444438--1444505 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
1444428 TATATATATA
1444438 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1444480 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
1444506 AATATATGAG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:1445851 original size:17 final size:17
Alignment explanation
Indices: 1445829--1445874 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
1445819 TATGTTTATA
*
1445829 TGATAAAA-ATGAATTAG
1 TGATAAAATATG-ATTAC
1445846 TGATAATAATATGATTAC
1 TGATAA-AATATGATTAC
1445864 TGAT-AAATATG
1 TGATAAAATATG
1445875 TTCATGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 6 0.23
17 7 0.27
18 10 0.38
19 3 0.12
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.35
Consensus pattern (17 bp):
TGATAAAATATGATTAC
Found at i:1446329 original size:21 final size:22
Alignment explanation
Indices: 1446303--1446344 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1446293 ATGGAAGTAT
*
1446303 TGTAGCA-GGGTATCGGTTCCA
1 TGTAGCAGGGGAATCGGTTCCA
1446324 TGTAGCAGGGGAATCGGTTCC
1 TGTAGCAGGGGAATCGGTTCC
1446345 CTTTGACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.19, C:0.19, G:0.36, T:0.26
Consensus pattern (22 bp):
TGTAGCAGGGGAATCGGTTCCA
Found at i:1456345 original size:20 final size:21
Alignment explanation
Indices: 1456310--1456348 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1456300 GAAAAAATGT
*
1456310 AATATTTTAGGAAGAAAAACA
1 AATACTTTAGGAAGAAAAACA
1456331 AATACTTTA-GAAGAAAAA
1 AATACTTTAGGAAGAAAAA
1456349 TAAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.59, C:0.05, G:0.13, T:0.23
Consensus pattern (21 bp):
AATACTTTAGGAAGAAAAACA
Found at i:1462830 original size:24 final size:24
Alignment explanation
Indices: 1462802--1462859 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
1462792 AACGAACATA
*
1462802 AACGAACATATATGGACATAAATG
1 AACGAACATACATGGACATAAATG
1462826 AACGAACATACATGGACATAAATG
1 AACGAACATACATGGACATAAATG
1462850 AACGAACATA
1 AACGAACATA
1462860 AATGAACGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.17
Consensus pattern (24 bp):
AACGAACATACATGGACATAAATG
Found at i:1462860 original size:14 final size:14
Alignment explanation
Indices: 1462817--1462869 Score: 69
Period size: 14 Copynumber: 4.1 Consensus size: 14
1462807 ACATATATGG
1462817 ACATAAATGAACGA
1 ACATAAATGAACGA
*
1462831 ACATACATG---G-
1 ACATAAATGAACGA
1462841 ACATAAATGAACGA
1 ACATAAATGAACGA
1462855 ACATAAATGAACGA
1 ACATAAATGAACGA
1462869 A
1 A
1462870 TTACCGAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 8 0.24
11 1 0.03
13 1 0.03
14 23 0.70
ACGTcount: A:0.55, C:0.15, G:0.15, T:0.15
Consensus pattern (14 bp):
ACATAAATGAACGA
Found at i:1463506 original size:60 final size:60
Alignment explanation
Indices: 1463405--1463544 Score: 187
Period size: 60 Copynumber: 2.3 Consensus size: 60
1463395 ATATGTATAA
* *
1463405 TTTGGGATG-AAATGGAAATGTTCAAAAAGTTTGGGGGCTAATTTAGAATGA-AGATAATAG
1 TTTGGGATGAAAAT-GAAATGTTCAAAAAGTTTGCGGACTAATTTAGAATGATAG-TAATAG
1463465 TTTGGGGATGAAAATGAAATGTTC-AAAAGTTTGCGGACTAATTTAGAATGATAGTAATAG
1 TTT-GGGATGAAAATGAAATGTTCAAAAAGTTTGCGGACTAATTTAGAATGATAGTAATAG
** *
1463525 TTTAAGATGAAATTGAAATG
1 TTTGGGATGAAAATGAAATG
1463545 ATTAAATATT
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
59 14 0.19
60 37 0.51
61 17 0.24
62 4 0.06
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.31
Consensus pattern (60 bp):
TTTGGGATGAAAATGAAATGTTCAAAAAGTTTGCGGACTAATTTAGAATGATAGTAATAG
Found at i:1463565 original size:59 final size:60
Alignment explanation
Indices: 1463410--1463576 Score: 157
Period size: 60 Copynumber: 2.8 Consensus size: 60
1463400 TATAATTTGG
** * **
1463410 GATG-AAATGGAAATGTTCAAAAAGTTTGGGGGCTAATTTAGAATGAAGATAATAGTTTGGG
1 GATGAAAAT-GAAATGTTC-AAAAGTTTAAGGACTAATTTAGAATGAAGATAATAGTTTGAA
**
1463471 GATGAAAATGAAATGTTCAAAAGTTTGCGGACTAATTTAGAATGATAG-TAATAGTTT-AA
1 GATGAAAATGAAATGTTCAAAAGTTTAAGGACTAATTTAGAATGA-AGATAATAGTTTGAA
* **
1463530 GATGAAATTGAAATGATT-AAATA-TTTAAGTTCTAATTTAGAAT-AAGA
1 GATGAAAATGAAATG-TTCAAA-AGTTTAAGGACTAATTTAGAATGAAGA
1463577 GTCATAACCG
Statistics
Matches: 92, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
57 2 0.02
58 1 0.01
59 33 0.36
60 37 0.40
61 15 0.16
62 4 0.04
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (60 bp):
GATGAAAATGAAATGTTCAAAAGTTTAAGGACTAATTTAGAATGAAGATAATAGTTTGAA
Found at i:1464325 original size:16 final size:17
Alignment explanation
Indices: 1464288--1464331 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
1464278 CACCACATAG
1464288 ATAATAAAATATATTTT
1 ATAATAAAATATATTTT
* *
1464305 -GAATAATAT-TATTTT
1 ATAATAAAATATATTTT
1464320 ATAATAAAATAT
1 ATAATAAAATAT
1464332 TTGAATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 4
0.72 0.14 0.14
Matches are distributed among these distances:
15 6 0.29
16 14 0.67
17 1 0.05
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
ATAATAAAATATATTTT
Found at i:1485057 original size:18 final size:19
Alignment explanation
Indices: 1485034--1485084 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
1485024 TTGCCTTTTT
1485034 GGTCAAAGTCAACGA-TCA
1 GGTCAAAGTCAACGATTCA
1485052 GGTCAAAGTCAACGATTCA
1 GGTCAAAGTCAACGATTCA
*
1485071 GGTCAAGGTCAACG
1 GGTCAAAGTCAACG
1485085 GGTCATACCG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (19 bp):
GGTCAAAGTCAACGATTCA
Found at i:1489557 original size:20 final size:20
Alignment explanation
Indices: 1489504--1489557 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
1489494 GGGTCAGATC
**
1489504 GGTTCGA-TTAACTCAGTTT
1 GGTTCGAGTTAACTCAACTT
* *
1489523 GGTTCGGGTTGACTCAACTT
1 GGTTCGAGTTAACTCAACTT
1489543 GGTTCGAGTTAACTC
1 GGTTCGAGTTAACTC
1489558 GGTCGGGTCA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.37
Consensus pattern (20 bp):
GGTTCGAGTTAACTCAACTT
Found at i:1493089 original size:2 final size:2
Alignment explanation
Indices: 1493082--1493134 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
1493072 CGAAATACAA
1493082 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1493124 AT AT AT AT AT A
1 AT AT AT AT AT A
1493135 CACACACCAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1493291 original size:24 final size:24
Alignment explanation
Indices: 1493264--1493315 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
1493254 CAGCTCGTAT
*
1493264 AAATTGCACCGAAGTGCCGCATAG
1 AAATTGCACCGAAGTGCCACATAG
*
1493288 AAATTGCACCGAAGTGCCACATAT
1 AAATTGCACCGAAGTGCCACATAG
1493312 AAAT
1 AAAT
1493316 GTCTCGAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (24 bp):
AAATTGCACCGAAGTGCCACATAG
Found at i:1493370 original size:23 final size:23
Alignment explanation
Indices: 1493312--1493382 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 23
1493302 TGCCACATAT
* * *
1493312 AAATGTCTCGAATGACCACATAG
1 AAATGTCCCGAAGGACCACGTAG
* *
1493335 TATTG-CCCTGAAGGACCACGTAG
1 AAATGTCCC-GAAGGACCACGTAG
*
1493358 AAATGTCCCGAAGGACCGCGTAG
1 AAATGTCCCGAAGGACCACGTAG
1493381 AA
1 AA
1493383 CCCTCGACTC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
22 2 0.05
23 33 0.87
24 3 0.08
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (23 bp):
AAATGTCCCGAAGGACCACGTAG
Found at i:1498253 original size:23 final size:23
Alignment explanation
Indices: 1498227--1498293 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
1498217 CACGACAGCT
*
1498227 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * * *
1498250 CGTAGAATTGCACCGTAGTACCG
1 CGTAGAAATGCACCGAAGTGCCA
*
1498273 CATAGAAATGCACCGAAGTGC
1 CGTAGAAATGCACCGAAGTGC
1498294 TATATAAGGT
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:0.33, C:0.25, G:0.24, T:0.18
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:1500864 original size:24 final size:25
Alignment explanation
Indices: 1500837--1500893 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
1500827 CATCACATCT
1500837 CGTATAAAT-TACACCAAAGTGCCA
1 CGTATAAATATACACCAAAGTGCCA
* * *
1500861 CGTA-GAATATGCACCGAAGTGCCA
1 CGTATAAATATACACCAAAGTGCCA
1500885 CGTATAAAT
1 CGTATAAAT
1500894 GTCTCAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 3 0.11
24 21 0.78
25 3 0.11
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.21
Consensus pattern (25 bp):
CGTATAAATATACACCAAAGTGCCA
Found at i:1512965 original size:30 final size:32
Alignment explanation
Indices: 1512925--1513007 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 32
1512915 AATGACTAAC
* *
1512925 ATAAATATATTTTTAATTTTTAAT-AT-TAAA
1 ATAAAAATATTTTTAATTTTTAATGATAGAAA
1512955 ATAAAAATATTATTATAA--TTTAATGATAGAAA
1 ATAAAAATATT-TT-TAATTTTTAATGATAGAAA
*
1512987 ACAAACAATATTTTTAATTTT
1 ATAAA-AATATTTTTAATTTT
1513008 ACGACCAGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
30 16 0.37
31 7 0.16
32 12 0.28
33 8 0.19
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (32 bp):
ATAAAAATATTTTTAATTTTTAATGATAGAAA
Found at i:1513481 original size:2 final size:2
Alignment explanation
Indices: 1513474--1513512 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1513464 TCAATACAAT
1513474 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1513513 TAGGATTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1516945 original size:16 final size:18
Alignment explanation
Indices: 1516918--1516950 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1516908 AAAACATTTT
1516918 TATAATTTA-TTTAAATA
1 TATAATTTATTTTAAATA
1516935 TATAA-TTATTTTAAAT
1 TATAATTTATTTTAAAT
1516951 CAAAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATAATTTATTTTAAATA
Found at i:1517631 original size:2 final size:2
Alignment explanation
Indices: 1517624--1517661 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1517614 AGGGAAGTAA
1517624 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1517662 TATTATTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1532672 original size:24 final size:24
Alignment explanation
Indices: 1532645--1532694 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
1532635 ACATGTTCAT
1532645 GAATACATTCATGAACATATAAAC
1 GAATACATTCATGAACATATAAAC
* *
1532669 GAATACGTTCGTGAACATATAAAC
1 GAATACATTCATGAACATATAAAC
1532693 GA
1 GA
1532695 GCACATTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (24 bp):
GAATACATTCATGAACATATAAAC
Found at i:1532934 original size:129 final size:128
Alignment explanation
Indices: 1532780--1533036 Score: 505
Period size: 129 Copynumber: 2.0 Consensus size: 128
1532770 TTGCGGACAT
1532780 TAAATGAACATGTTCATGAATAATAAATAAACGAACACGAATACCTTCAAAAATAAATAAAAGAA
1 TAAATGAACATGTTCATGAATAATAAATAAACGAACACGAATACCTTCAAAAATAAATAAAAGAA
1532845 CACAAACATATCCTTATTCGTTAAAGCTCAAATCATTTACACCCCTGCCAACCCATTTGATTCA
66 CACAAACATATCCTTATTCGTTAAAGCTCAAATCATTTACACCCCTGCCAACCCA-TTGATTCA
1532909 TAAATGAACATGTTCATGAATAATAAATAAACGAACACGAATACCTTCAAAAATAAATAAAAGAA
1 TAAATGAACATGTTCATGAATAATAAATAAACGAACACGAATACCTTCAAAAATAAATAAAAGAA
1532974 CACAAACATATCCTTATTCGTTAAAGCTCAAATCATTTACACCCCTGCCAACCCATTGATTCA
66 CACAAACATATCCTTATTCGTTAAAGCTCAAATCATTTACACCCCTGCCAACCCATTGATTCA
1533037 AATACATATA
Statistics
Matches: 128, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
128 8 0.06
129 120 0.94
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (128 bp):
TAAATGAACATGTTCATGAATAATAAATAAACGAACACGAATACCTTCAAAAATAAATAAAAGAA
CACAAACATATCCTTATTCGTTAAAGCTCAAATCATTTACACCCCTGCCAACCCATTGATTCA
Found at i:1533556 original size:17 final size:19
Alignment explanation
Indices: 1533461--1533569 Score: 76
Period size: 19 Copynumber: 5.2 Consensus size: 19
1533451 AATAATTTAA
*
1533461 TAATATTAT-ATTATATTTT
1 TAATATTATAATAATA-TTT
* *
1533480 TAGTGTTATAATAATATCTT
1 TAATATTATAATAATAT-TT
1533500 TAATTATATTATAATAATATAAATTT
1 T-A--ATATTATAAT-A-AT--ATTT
1533526 TAATATTATAATAATATTT
1 TAATATTATAATAATATTT
*
1533545 TAATTTTAATAATTAATATTT
1 TAATATT-ATAA-TAATATTT
1533566 TAAT
1 TAAT
1533570 GTTCTTTATT
Statistics
Matches: 73, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
19 18 0.25
20 12 0.16
21 15 0.21
22 1 0.01
23 18 0.25
24 1 0.01
25 3 0.04
26 3 0.04
27 2 0.03
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (19 bp):
TAATATTATAATAATATTT
Found at i:1533559 original size:26 final size:25
Alignment explanation
Indices: 1533485--1533569 Score: 89
Period size: 23 Copynumber: 3.7 Consensus size: 25
1533475 ATTTTTAGTG
1533485 TTATAATAATATCTTTAA--TT-ATA
1 TTATAATAATAT-TTTAATTTTAATA
*
1533508 TTATAATAATA--TAAATTTTAATA
1 TTATAATAATATTTTAATTTTAATA
1533531 TTATAATAATATTTTAATTTTAATA
1 TTATAATAATATTTTAATTTTAATA
1533556 --AT--TAATATTTTAAT
1 TTATAATAATATTTTAAT
1533570 GTTCTTTATT
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
20 3 0.05
21 12 0.22
22 2 0.04
23 27 0.49
25 11 0.20
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (25 bp):
TTATAATAATATTTTAATTTTAATA
Found at i:1535407 original size:127 final size:127
Alignment explanation
Indices: 1535181--1535416 Score: 472
Period size: 127 Copynumber: 1.9 Consensus size: 127
1535171 CAACGATAAA
1535181 CTAAGGTGGTGTTTGTTTTTGCAAAGGTAAAATGTCTGCAGTCTACGGACCACATCTGCAGGCAT
1 CTAAGGTGGTGTTTGTTTTTGCAAAGGTAAAATGTCTGCAGTCTACGGACCACATCTGCAGGCAT
1535246 CTGCAGCAGAAGAGGTGGACAAAAAGTCTGCAGTCTGCAAGAAGTTTGGAACAGCAGACTGC
66 CTGCAGCAGAAGAGGTGGACAAAAAGTCTGCAGTCTGCAAGAAGTTTGGAACAGCAGACTGC
1535308 CTAAGGTGGTGTTTGTTTTTGCAAAGGTAAAATGTCTGCAGTCTACGGACCACATCTGCAGGCAT
1 CTAAGGTGGTGTTTGTTTTTGCAAAGGTAAAATGTCTGCAGTCTACGGACCACATCTGCAGGCAT
1535373 CTGCAGCAGAAGAGGTGGACAAAAAGTCTGCAGTCTGCAAGAAG
66 CTGCAGCAGAAGAGGTGGACAAAAAGTCTGCAGTCTGCAAGAAG
1535417 AAGACTATTT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 109 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (127 bp):
CTAAGGTGGTGTTTGTTTTTGCAAAGGTAAAATGTCTGCAGTCTACGGACCACATCTGCAGGCAT
CTGCAGCAGAAGAGGTGGACAAAAAGTCTGCAGTCTGCAAGAAGTTTGGAACAGCAGACTGC
Found at i:1536066 original size:20 final size:20
Alignment explanation
Indices: 1536018--1536079 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 20
1536008 AACTTAAATC
*
1536018 AAAATAATTAAAATAA-ATAT
1 AAAATAATT-TAATAATATAT
1536038 AAAAT--TTTAATAATATAT
1 AAAATAATTTAATAATATAT
1536056 AAAATAATTT-AT-ATGATAT
1 AAAATAATTTAATAAT-ATAT
1536075 AAAAT
1 AAAAT
1536080 TAAATATCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 5 0.14
18 13 0.35
19 11 0.30
20 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATAATTTAATAATATAT
Found at i:1536100 original size:63 final size:61
Alignment explanation
Indices: 1536047--1536244 Score: 204
Period size: 64 Copynumber: 3.1 Consensus size: 61
1536037 TAAAATTTTA
1536047 ATAA-TATATAAAATAATTTATATGATATAAAATTAAATATCTATAATATAATATTAAAAATTAA
1 ATAATTATATAAAA-AA-TTA-AT-AT-TAAAATT-AATATCTATAATATAATATT-AAAATTAA
1536111 TAT
59 TAT
* *
1536114 TTAATTTATTTAAAAAATTAATATTAAAATTAATATCTATAATATAATATTAAAAAATTAATAT
1 ATAA-TTATATAAAAAATTAATATTAAAATTAATATCTATAATATAATATT--AAAATTAATAT
* * *
1536178 TTAATTTATTTAAAAAATTAATATTAAAATTAAAATCAAATATAATATAATA-TAAAATTAA-AT
1 ATAA-TTATATAAAAAATTAATATTAAAATTAATATC---TATAATATAATATTAAAATTAATAT
1536241 ATAA
1 ATAA
1536245 AACCTCTTTG
Statistics
Matches: 121, Mismatches: 4, Indels: 16
0.86 0.03 0.11
Matches are distributed among these distances:
63 25 0.21
64 63 0.52
65 2 0.02
66 3 0.02
67 18 0.15
68 2 0.02
69 8 0.07
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.41
Consensus pattern (61 bp):
ATAATTATATAAAAAATTAATATTAAAATTAATATCTATAATATAATATTAAAATTAATAT
Found at i:1536143 original size:64 final size:65
Alignment explanation
Indices: 1536074--1536225 Score: 269
Period size: 64 Copynumber: 2.4 Consensus size: 65
1536064 TTATATGATA
1536074 TAAAATTAAATATCTATAATATAATATT-AAAAATTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
1536138 TAAAATT-AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
1536202 TAAAATTAAA-ATC-A-AATATAATAT
1 TAAAATTAAATATCTATAATATAATAT
1536226 AATATAAAAT
Statistics
Matches: 86, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
62 10 0.12
63 21 0.24
64 53 0.62
65 2 0.02
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (65 bp):
TAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
Found at i:1536173 original size:40 final size:37
Alignment explanation
Indices: 1536095--1536178 Score: 116
Period size: 40 Copynumber: 2.2 Consensus size: 37
1536085 ATCTATAATA
*
1536095 TAATATTAAAAATTAATATTTAATTTATTTAAAAAAT
1 TAATATTAAAAATTAATATTTAATTAATTTAAAAAAT
1536132 TAATATT-AAAATTAATATCTATAATATAATATTAAAAAAT
1 TAATATTAAAAATTAATAT-T-TAAT-TAAT-TTAAAAAAT
1536172 TAATATT
1 TAATATT
1536179 TAATTTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
36 11 0.26
37 8 0.19
38 4 0.10
39 3 0.07
40 16 0.38
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (37 bp):
TAATATTAAAAATTAATATTTAATTAATTTAAAAAAT
Found at i:1536182 original size:26 final size:26
Alignment explanation
Indices: 1536129--1536210 Score: 100
Period size: 24 Copynumber: 3.2 Consensus size: 26
1536119 TTATTTAAAA
1536129 AATTAATATT--AAAATTAATATCTAT
1 AATTAATATTAAAAAATTAATAT-TAT
1536154 AATATAATATTAAAAAATTAATATT-T
1 AAT-TAATATTAAAAAATTAATATTAT
* *
1536180 AATTTAT-TTAAAAAATTAATATTAA
1 AATTAATATTAAAAAATTAATATTAT
1536205 AATTAA
1 AATTAA
1536211 AATCAAATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
24 16 0.32
25 11 0.22
26 11 0.22
27 1 0.02
28 11 0.22
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (26 bp):
AATTAATATTAAAAAATTAATATTAT
Found at i:1537048 original size:22 final size:22
Alignment explanation
Indices: 1536982--1537526 Score: 600
Period size: 22 Copynumber: 25.8 Consensus size: 22
1536972 TAAATATAAA
1536982 ATTTATTTTAAAATAT--ATTG
1 ATTTATTTTAAAATATGGATTG
**
1537002 A-TTATTTTAAAATAT--A-AA
1 ATTTATTTTAAAATATGGATTG
*
1537020 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATGGATTG
1537042 ATTTA-TTTAAAATAT--A---
1 ATTTATTTTAAAATATGGATTG
1537058 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
**
1537080 ATTTATTTTAAAATAT-GA-AA
1 ATTTATTTTAAAATATGGATTG
* **
1537100 AATTATTTTAAAATATAAATTG
1 ATTTATTTTAAAATATGGATTG
***
1537122 ATTTATTTTAAAATATGGAAAA
1 ATTTATTTTAAAATATGGATTG
1537144 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
**
1537166 ATTTATTTTAAAATATGGA-AA
1 ATTTATTTTAAAATATGGATTG
1537187 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
***
1537209 ATTTATTTTAAAATAT-GAAAA
1 ATTTATTTTAAAATATGGATTG
*
1537230 ATTTTATTTTAAAATATGAATTG
1 A-TTTATTTTAAAATATGGATTG
**
1537253 ATTTATTTTAAAATATGGA-AA
1 ATTTATTTTAAAATATGGATTG
1537274 ATTTTATTTTAAAATATGGATTG
1 A-TTTATTTTAAAATATGGATTG
**
1537297 ATTTATTTTAAAATATGGA-AA
1 ATTTATTTTAAAATATGGATTG
1537318 ATTTTATTTTAAAATATGGATTG
1 A-TTTATTTTAAAATATGGATTG
***
1537341 ATTTATTTTAAAATAT-GAAAA
1 ATTTATTTTAAAATATGGATTG
1537362 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
1537384 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
***
1537406 ATTTATTTTAAAATAT-GAAAA
1 ATTTATTTTAAAATATGGATTG
1537427 ATTTATTTTAAAATAT-GATTG
1 ATTTATTTTAAAATATGGATTG
1537448 ATTTATTTTAAAATAT-GATTG
1 ATTTATTTTAAAATATGGATTG
* **
1537469 ATTTATTTT-AAATATAGA-AA
1 ATTTATTTTAAAATATGGATTG
* *
1537489 AATTATTTTAAAATATGAATTG
1 ATTTATTTTAAAATATGGATTG
1537511 ATTTATTTT-AAATATG
1 ATTTATTTTAAAATATG
1537527 AATTTATTAT
Statistics
Matches: 443, Mismatches: 59, Indels: 45
0.81 0.11 0.08
Matches are distributed among these distances:
16 5 0.01
17 10 0.02
18 1 0.00
19 31 0.07
20 30 0.07
21 122 0.28
22 240 0.54
23 4 0.01
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (22 bp):
ATTTATTTTAAAATATGGATTG
Found at i:1537166 original size:44 final size:43
Alignment explanation
Indices: 1536966--1537528 Score: 786
Period size: 44 Copynumber: 13.4 Consensus size: 43
1536956 AAAATCGTGA
1536966 TTATTTT-AAATAT--AAAATTTATTTTAAAATAT--ATTGA-
1 TTATTTTAAAATATGAAAAATTTATTTTAAAATATGGATTGAT
*
1537003 TTATTTTAAAATAT--AAAATTTATTTTAAAATATAGATTGAT
1 TTATTTTAAAATATGAAAAATTTATTTTAAAATATGGATTGAT
1537044 TTA-TTTAAAATAT----AATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGAAAAATTTATTTTAAAATATGGATTGAT
**
1537082 TTATTTTAAAATATGAAAAA-TTATTTTAAAATATAAATTGAT
1 TTATTTTAAAATATGAAAAATTTATTTTAAAATATGGATTGAT
1537124 TTATTTTAAAATATGGAAAAATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATAT-GAAAAATTTATTTTAAAATATGGATTGAT
*
1537168 TTATTTTAAAATATGGAAAATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGAAAAATTTATTTTAAAATATGGATTGAT
*
1537211 TTATTTTAAAATATGAAAAATTTTATTTTAAAATATGAATTGAT
1 TTATTTTAAAATATGAAAAA-TTTATTTTAAAATATGGATTGAT
*
1537255 TTATTTTAAAATATGGAAAATTTTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATAT-GAAAAATTTATTTTAAAATATGGATTGAT
*
1537299 TTATTTTAAAATATGGAAAATTTTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATAT-GAAAAATTTATTTTAAAATATGGATTGAT
1537343 TTATTTTAAAATATGAAAAATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGAAAAATTTATTTTAAAATATGGATTGAT
*** ***
1537386 TTATTTTAAAATATGGATTGATTTATTTTAAAATAT-GAAAAAT
1 TTATTTTAAAATAT-GAAAAATTTATTTTAAAATATGGATTGAT
***
1537429 TTATTTTAAAATATGATTGATTTATTTTAAAATAT-GATTGAT
1 TTATTTTAAAATATGAAAAATTTATTTTAAAATATGGATTGAT
*
1537471 TTATTTT-AAATATAGAAAAA-TTATTTTAAAATATGAATTGAT
1 TTATTTTAAAATAT-GAAAAATTTATTTTAAAATATGGATTGAT
1537513 TTATTTT-AAATATGAA
1 TTATTTTAAAATATGAA
1537529 TTTATTATTA
Statistics
Matches: 486, Mismatches: 24, Indels: 28
0.90 0.04 0.05
Matches are distributed among these distances:
37 7 0.01
38 52 0.11
39 10 0.02
40 15 0.03
41 26 0.05
42 88 0.18
43 115 0.24
44 168 0.35
45 5 0.01
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (43 bp):
TTATTTTAAAATATGAAAAATTTATTTTAAAATATGGATTGAT
Found at i:1537242 original size:87 final size:86
Alignment explanation
Indices: 1536966--1537526 Score: 775
Period size: 87 Copynumber: 6.7 Consensus size: 86
1536956 AAAATCGTGA
1536966 TTATTTT-AAATAT--AAAATTTATTTTAAAATAT--ATTGA-TTATTTTAAAATAT--AAAATT
1 TTATTTTAAAATATGAAAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGAAAATT
*
1537023 TATTTTAAAATATAGATTGAT
66 TATTTTAAAATATGGATTGAT
*
1537044 TTA-TTTAAAATAT----AATTTATTTTAAAATATGGATTGATTTATTTTAAAATAT-GAAAAAT
1 TTATTTTAAAATATGAAAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGAAAATT
**
1537103 TATTTTAAAATATAAATTGAT
66 TATTTTAAAATATGGATTGAT
1537124 TTATTTTAAAATATGGAAAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGAAAAT
1 TTATTTTAAAATAT-GAAAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGAAAAT
1537189 TTATTTTAAAATATGGATTGAT
65 TTATTTTAAAATATGGATTGAT
*
1537211 TTATTTTAAAATATGAAAAATTTTATTTTAAAATATGAATTGATTTATTTTAAAATATGGAAAAT
1 TTATTTTAAAATATGAAAAA-TTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGAAAA-
1537276 TTTATTTTAAAATATGGATTGAT
64 TTTATTTTAAAATATGGATTGAT
* *
1537299 TTATTTTAAAATATGGAAAATTTTATTTTAAAATATGGATTGATTTATTTTAAAATATGAAAAAT
1 TTATTTTAAAATAT-GAAAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGAAAAT
1537364 TTATTTTAAAATATGGATTGAT
65 TTATTTTAAAATATGGATTGAT
*** *** **
1537386 TTATTTTAAAATATGGATTGATTTATTTTAAAATAT-GAAAAATTTATTTTAAAATAT-GATTGA
1 TTATTTTAAAATAT-GAAAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGA-AAA
1537449 TTTATTTTAAAATAT-GATTGAT
64 TTTATTTTAAAATATGGATTGAT
*
1537471 TTATTTT-AAATATAGAAAAA-TTATTTTAAAATATGAATTGATTTATTTT-AAATATG
1 TTATTTTAAAATAT-GAAAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATG
1537527 AATTTATTAT
Statistics
Matches: 438, Mismatches: 27, Indels: 30
0.88 0.05 0.06
Matches are distributed among these distances:
76 17 0.04
77 3 0.01
78 14 0.03
79 14 0.03
80 28 0.06
81 10 0.02
83 20 0.05
84 19 0.04
85 15 0.03
86 79 0.18
87 136 0.31
88 78 0.18
89 5 0.01
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (86 bp):
TTATTTTAAAATATGAAAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGAAAATT
TATTTTAAAATATGGATTGAT
Found at i:1537553 original size:63 final size:61
Alignment explanation
Indices: 1537058--1537555 Score: 340
Period size: 65 Copynumber: 7.7 Consensus size: 61
1537048 TTAAAATATA
* * * *
1537058 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGAAAAATTATTTTAAAATATAAATTG
1 ATTTATTTTAAAATAT-GATTGATTTATTTT-AATTTTAAAAAATTATTTTAAAATAT-GATTG
*** ** *** * *
1537122 ATTTATTTTAAAATATGGAAAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGA-A
1 ATTTATTTTAAAATAT-GATTGATTTATTTT--AAT-TTTAAAAAATTATTTTAAAATAT-GATT
*
1537186 A
61 G
* * *
1537187 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGAAAAATTTTATTTTAAAATATGAATT
1 ATTTATTTTAAAATAT-GATTGATTTATTTT--AATTTTAAAAA-ATTATTTTAAAATATG-ATT
1537252 G
61 G
** ** *** *
1537253 ATTTATTTTAAAATATGGA-AAATTTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGA-
1 ATTTATTTTAAAATAT-GATTGA-TTTATTTT--AAT-TTTAAAAAATTATTTTAAAATAT-GAT
**
1537316 AA
60 TG
* * *
1537318 ATTTTATTTTAAAATATGGATTGATTTATTTTAAAATATGAAAAATTTATTTTAAAATATGGATT
1 A-TTTATTTTAAAATAT-GATTGATTTATTTT--AATTTTAAAAAATTATTTTAAAATAT-GATT
1537383 G
61 G
* * *
1537384 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGAAAAATTTATTTTAAAATATGATTG
1 ATTTATTTTAAAATAT-GATTGATTTATTTT--AATTTTAAAAAATTATTTTAAAATATGATTG
* *
1537448 ATTTATTTTAAAATATGATTGATTTATTTTAAATATAGAAAAATTATTTTAAAATATGAATTG
1 ATTTATTTTAAAATATGATTGATTTATTTTAATTTTA-AAAAATTATTTTAAAATATG-ATTG
*
1537511 ATTTATTTT-AAATATGAATTTATTATTATTTT-ATTTTAAAAAATT
1 ATTTATTTTAAAATATG-ATTGA-T-TTATTTTAATTTTAAAAAATT
1537556 TATTATTATA
Statistics
Matches: 367, Mismatches: 51, Indels: 33
0.81 0.11 0.07
Matches are distributed among these distances:
61 3 0.01
62 26 0.07
63 38 0.10
64 58 0.16
65 140 0.38
66 97 0.26
67 5 0.01
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (61 bp):
ATTTATTTTAAAATATGATTGATTTATTTTAATTTTAAAAAATTATTTTAAAATATGATTG
Found at i:1537561 original size:25 final size:27
Alignment explanation
Indices: 1537512--1537564 Score: 83
Period size: 25 Copynumber: 2.0 Consensus size: 27
1537502 TATGAATTGA
1537512 TTTATTTTAAATATGAATTTATTATTAT
1 TTTATTTTAAATA-GAATTTATTATTAT
1537540 TTTATTTTAAA-A-AATTTATTATTAT
1 TTTATTTTAAATAGAATTTATTATTAT
1537565 AGTTGTATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 13 0.52
27 1 0.04
28 11 0.44
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTATTTTAAATAGAATTTATTATTAT
Found at i:1537610 original size:31 final size:31
Alignment explanation
Indices: 1537575--1537633 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
1537565 AGTTGTATGG
1537575 ATTATTTAAATTTCAGTATTATAAAACTAAA
1 ATTATTTAAATTTCAGTATTATAAAACTAAA
*
1537606 ATTATTTAAATTTCAGTATTGTAAAACT
1 ATTATTTAAATTTCAGTATTATAAAACT
1537634 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (31 bp):
ATTATTTAAATTTCAGTATTATAAAACTAAA
Found at i:1543176 original size:65 final size:66
Alignment explanation
Indices: 1543049--1543185 Score: 158
Period size: 65 Copynumber: 2.1 Consensus size: 66
1543039 TTTTATCTTT
* * *
1543049 GTATTTTAGTTTAAATAGGTTTTATTATTTTAATTAGTATTTATAATATTATATTAT-TTTTTTA
1 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTATAATATTATACTATGTTTTTTA
1543113 G
66 G
* * *
1543114 GTATTTTAGTTTAAATA-GTTTTAAGTGTTTTAATTAGGATTTA-AGATGTTTTAGCT-TGTTTT
1 GTATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAGGATTTATA-ATATTATA-CTATGTTTT
1543176 TTAG
63 TTAG
1543180 G-ATTTT
1 GTATTTT
1543186 GAAGGCTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
64 6 0.10
65 46 0.74
66 10 0.16
ACGTcount: A:0.28, C:0.01, G:0.14, T:0.58
Consensus pattern (66 bp):
GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTATAATATTATACTATGTTTTTTA
G
Found at i:1544122 original size:20 final size:20
Alignment explanation
Indices: 1544097--1544144 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
1544087 CGACAAGTAC
1544097 TGATTTATTTTTCTAGTTTT
1 TGATTTATTTTTCTAGTTTT
1544117 TGATTTATTTTTCTAGTTTT
1 TGATTTATTTTTCTAGTTTT
*
1544137 TAATTTAT
1 TGATTTAT
1544145 GACCAGAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.19, C:0.04, G:0.08, T:0.69
Consensus pattern (20 bp):
TGATTTATTTTTCTAGTTTT
Found at i:1547318 original size:21 final size:21
Alignment explanation
Indices: 1547274--1547319 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
1547264 GATTTCTGGG
* * *
1547274 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
1547295 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
1547316 CAAG
1 CAAG
1547320 CGAACCAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:1547392 original size:24 final size:22
Alignment explanation
Indices: 1547343--1547384 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1547333 ACAGAATGTC
1547343 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
1547364 CAGGAGGGAACCGATTCCCCC
1 AAGGAGGGAACCGATACCCCC
1547385 CTAAAGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.29, C:0.36, G:0.29, T:0.07
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:1548085 original size:31 final size:31
Alignment explanation
Indices: 1548047--1548220 Score: 303
Period size: 31 Copynumber: 5.6 Consensus size: 31
1548037 AGGGTCGAGG
1548047 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1548078 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1548109 GTTTACTTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1548140 GTTTACCTATGTTTTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1548171 GTTTACCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
1548202 GATTACCTAGGTTCTTCGG
1 GTTTACCTATGTTCTTCGG
1548221 AATCTATGAA
Statistics
Matches: 135, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 135 1.00
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:1551374 original size:21 final size:21
Alignment explanation
Indices: 1551330--1551375 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1551320 GATTTCTGGG
* *
1551330 CAAGGGGAATCGATACCCATT
1 CAAGGGGAACCGATACCCACT
*
1551351 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
1551372 CAAG
1 CAAG
1551376 CGAACCAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.30, G:0.24, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:1551447 original size:23 final size:22
Alignment explanation
Indices: 1551399--1551447 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
1551389 ACAGAATGTC
1551399 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
1551420 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATACCCCC-A
1551443 AAGGA
1 AAGGA
1551448 AAAATGTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.33, C:0.31, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:1552395 original size:31 final size:31
Alignment explanation
Indices: 1552357--1552561 Score: 356
Period size: 31 Copynumber: 6.6 Consensus size: 31
1552347 AGGGTCGAGG
1552357 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1552388 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
1552419 GTTTACTTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1552450 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1552481 GTTTACCTATGTTTTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1552512 GTTTACCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
1552543 GATTACCTAGGTTCTTCGG
1 GTTTACCTATGTTCTTCGG
1552562 AATCTATGAA
Statistics
Matches: 164, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 164 1.00
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:1558598 original size:76 final size:75
Alignment explanation
Indices: 1558507--1558671 Score: 233
Period size: 76 Copynumber: 2.2 Consensus size: 75
1558497 TTAAACTCAA
* *
1558507 ATTTAGGATAATATTTTAAACATTATAT-TTTATCTTTGTATTTTAGTTTAAATATGTTTTTAGT
1 ATTTAGGATATTATTTT-AACATTATATCTTTATCTTTGTATTTTAGTTTAAATA-GGTTTTAGT
1558571 ATTTTAATTAAG
64 ATTTTAATTAAG
* * * *
1558583 TTTTAGGATATTATTTTTATATTTTATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTAT
1 ATTTAGGATATTATTTTAACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTAT
*
1558648 TTTAATTAGG
66 TTTAATTAAG
*
1558658 ATTTAGAATATTAT
1 ATTTAGGATATTAT
1558672 ATTATTTTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
75 38 0.48
76 41 0.52
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.57
Consensus pattern (75 bp):
ATTTAGGATATTATTTTAACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTAT
TTTAATTAAG
Found at i:1559332 original size:21 final size:22
Alignment explanation
Indices: 1559308--1559348 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
1559298 CTTTAATTTG
1559308 TTTATTTAATTATT-TTTTTCT
1 TTTATTTAATTATTATTTTTCT
1559329 TTTATTTAATTATTATTTTT
1 TTTATTTAATTATTATTTTT
1559349 TATTTTAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTATTTAATTATTATTTTTCT
Found at i:1561055 original size:47 final size:47
Alignment explanation
Indices: 1561002--1561209 Score: 271
Period size: 48 Copynumber: 4.5 Consensus size: 47
1560992 ACCATTTAAC
*
1561002 CCATAAGCTCGTAAGCTTATTTTA-CCAAAATACTTACCATCTAAATT
1 CCATAAGCTCGTAAGCTTATTTTATACAAAATACTTACCAT-TAAATT
* *
1561049 CCATAAGCTCATAAGCTTATTTTATACAAAATACTTATCATATAAATT
1 CCATAAGCTCGTAAGCTTATTTTATACAAAATACTTACCAT-TAAATT
* * *
1561097 CCATAAGCTCATAAGCTTATTTTATACAAAATACTTACCATTTAATC
1 CCATAAGCTCGTAAGCTTATTTTATACAAAATACTTACCATTAAATT
* * * *
1561144 CCATAAGCTCGTAAGCTTATTTTA-CCCATATACTTGCCATT--ATT
1 CCATAAGCTCGTAAGCTTATTTTATACAAAATACTTACCATTAAATT
*
1561188 CCAAAAGCTCGTAAGCTTATTT
1 CCATAAGCTCGTAAGCTTATTT
1561210 GTATGCTTAC
Statistics
Matches: 146, Mismatches: 14, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
44 23 0.16
46 13 0.09
47 50 0.34
48 60 0.41
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.36
Consensus pattern (47 bp):
CCATAAGCTCGTAAGCTTATTTTATACAAAATACTTACCATTAAATT
Found at i:1561358 original size:40 final size:40
Alignment explanation
Indices: 1561314--1561395 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
1561304 ACCGTAGTGC
*
1561314 TACACATAAGGTCGTGCCCACCATATACACCGAATTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1561354 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1561394 TA
1 TA
1561396 TAAACCTGCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:1568513 original size:47 final size:47
Alignment explanation
Indices: 1568438--1568658 Score: 263
Period size: 48 Copynumber: 4.8 Consensus size: 47
1568428 TATAAAATCT
* * * *
1568438 CTTACCATT-TATCCCATGAGCTCGTAAGCTTATTTTA-CCAAAATA
1 CTTACCATTAAATTCCATAAGCTCGTAAGCTTATTTTATACAAAATA
*
1568483 CTTACCATCTAAATTCCATAAGCTCATAAGCTTATTTTATACAAAATA
1 CTTACCAT-TAAATTCCATAAGCTCGTAAGCTTATTTTATACAAAATA
* *
1568531 CTTACCATATAAATTCCATAAACTCATAAGCTTATTTTATACAAAATA
1 CTTACCAT-TAAATTCCATAAGCTCGTAAGCTTATTTTATACAAAATA
* * * * *
1568579 CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTA-CCCATATA
1 CTTACCATTAAATTCCATAAGCTCGTAAGCTTATTTTATACAAAATA
* *
1568625 CTTGCCATT--ATTCCAAAAGCTCGTAAGCTTATTT
1 CTTACCATTAAATTCCATAAGCTCGTAAGCTTATTT
1568659 GTATGCTTAC
Statistics
Matches: 156, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
44 23 0.15
45 8 0.05
46 14 0.09
47 50 0.32
48 61 0.39
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.36
Consensus pattern (47 bp):
CTTACCATTAAATTCCATAAGCTCGTAAGCTTATTTTATACAAAATA
Found at i:1568807 original size:40 final size:40
Alignment explanation
Indices: 1568763--1568844 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
1568753 ACCGTAGTGC
*
1568763 TACACATAAGGTCGTGCCCACCATATACACCGAATTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
1568803 TACACATAAGGTCGTGTCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1568843 TA
1 TA
1568845 TAAACCTGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:1577766 original size:18 final size:18
Alignment explanation
Indices: 1577710--1577765 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
1577700 TTCTTAGGAC
1577710 TTTATTTTCTTTAGGTAT
1 TTTATTTTCTTTAGGTAT
* ** * *
1577728 TTTAATCCCATTAGGAAT
1 TTTATTTTCTTTAGGTAT
1577746 TTTATTTTCTTTAGGT-T
1 TTTATTTTCTTTAGGTAT
1577763 TTT
1 TTT
1577766 TCAAGCTATA
Statistics
Matches: 28, Mismatches: 10, Indels: 1
0.72 0.26 0.03
Matches are distributed among these distances:
17 4 0.14
18 24 0.86
ACGTcount: A:0.20, C:0.09, G:0.11, T:0.61
Consensus pattern (18 bp):
TTTATTTTCTTTAGGTAT
Found at i:1579658 original size:101 final size:99
Alignment explanation
Indices: 1579295--1579659 Score: 364
Period size: 99 Copynumber: 3.7 Consensus size: 99
1579285 TAATGTTACC
* ** * * *
1579295 GGTTGCACCTTAG-TGTTATGTTAACTTG-TTAAGTTATAGTTTGAAACCTTATATATTATGAAA
1 GGTTGCGCCTT-GTTGTTATGTTAAC-TGATTAAGTTATAGGCTGAAATCGTGTATATTATGAAA
* * *
1579358 AAGT-AATAAAACCTGGTTTCCTGGATAACGTTGTA
64 AAGTAAAAAAAACCTGGTTTCCTGGATAACATTATA
* * * * * *
1579393 GGTTGCACTTTGTTTTTATGTTAACTGCTTAAGTTATAGGCTAAAATCGTGTATATTATGAAAAT
1 GGTTGCGCCTTGTTGTTATGTTAACTGATTAAGTTATAGGCTGAAATCGTGTATATTATGAAAAA
* * *
1579458 TTAAAACAAACCTAGTTTCCTGGATAACATTATA
66 GTAAAAAAAACCTGGTTTCCTGGATAACATTATA
* * * * *
1579492 GGTTACGCCTTATTGATATGTTAACT-AGTTAAGTTATAGGCTGAAATCGTGTATAGTATGGAAA
1 GGTTGCGCCTTGTTGTTATGTTAACTGA-TTAAGTTATAGGCTGAAATCGTGTATATTATGAAAA
* *
1579556 AGTAAAAAAAAAACCCGGTTTCTTGGATAACATTATA
65 AGT--AAAAAAAACCTGGTTTCCTGGATAACATTATA
* * * *
1579593 GGTTGTGCCTTGTTGTTATGTTAATTGATTAAGTTATAGGTTGAAA-C-TGTATACCTTATAAAA
1 GGTTGCGCCTTGTTGTTATGTTAACTGATTAAGTTATAGGCTGAAATCGTGTATA--TTATGAAA
1579656 AAGT
64 AAGT
1579660 GATACAAATC
Statistics
Matches: 218, Mismatches: 40, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
97 3 0.01
98 52 0.24
99 86 0.39
100 1 0.00
101 75 0.34
102 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (99 bp):
GGTTGCGCCTTGTTGTTATGTTAACTGATTAAGTTATAGGCTGAAATCGTGTATATTATGAAAAA
GTAAAAAAAACCTGGTTTCCTGGATAACATTATA
Found at i:1580193 original size:55 final size:55
Alignment explanation
Indices: 1580133--1580242 Score: 157
Period size: 55 Copynumber: 2.0 Consensus size: 55
1580123 AGTTTTTTGT
* * *
1580133 CTTGCAGTTATGTGACATATCTTTCTTAACCTGGGGAGGTTAACAAAAAGTTTTC
1 CTTGCAGTTATGTGACATAGCTTTCTTAACATGGGAAGGTTAACAAAAAGTTTTC
* * * *
1580188 CTTGCAGTTGTGTGCCATAGCTTTCTTAACATGGGAAGGTTAAGATAAAGTTTTC
1 CTTGCAGTTATGTGACATAGCTTTCTTAACATGGGAAGGTTAACAAAAAGTTTTC
1580243 TCACTTCTGA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.36
Consensus pattern (55 bp):
CTTGCAGTTATGTGACATAGCTTTCTTAACATGGGAAGGTTAACAAAAAGTTTTC
Found at i:1581366 original size:98 final size:101
Alignment explanation
Indices: 1581163--1581381 Score: 241
Period size: 98 Copynumber: 2.2 Consensus size: 101
1581153 CAAACCAGGT
* * * *
1581163 TTATATGTTTGAAATTGTTTTTATTATGCAAAACTAAGCAAAAATAGGTTTATAAGTATAACATT
1 TTATATGTTTGAAATTGTTTATATTATGAAAAAATAAGCAAAAACAGGTTTATAAGTATAACATT
* **
1581228 ATAGGTAGCGCATTTTTTAATTGTCAACCGTTTACG
66 ATAGGTAGCGCATTTTTTAATTGTCAACCGTTAAAA
*
1581264 TTATATGTTTGAAACTT-TTTATATTATGAAAAAAT-A-C-AAAACAGGTTTATAAGTATAACTT
1 TTATATGTTTGAAA-TTGTTTATATTATGAAAAAATAAGCAAAAACAGGTTTATAAGTATAACAT
* * * * **
1581325 TGTAGGTTGTGTC-TTTTTTAATTTTCAATTGTTAAAA
65 TATAGGTAGCG-CATTTTTTAATTGTCAACCGTTAAAA
* *
1581362 TTATATGTTTCAAATAGTTT
1 TTATATGTTTGAAATTGTTT
1581382 TTACTGTACA
Statistics
Matches: 99, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
97 1 0.01
98 64 0.65
99 2 0.02
100 1 0.01
101 29 0.29
102 2 0.02
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.44
Consensus pattern (101 bp):
TTATATGTTTGAAATTGTTTATATTATGAAAAAATAAGCAAAAACAGGTTTATAAGTATAACATT
ATAGGTAGCGCATTTTTTAATTGTCAACCGTTAAAA
Found at i:1581758 original size:38 final size:38
Alignment explanation
Indices: 1581650--1581764 Score: 126
Period size: 38 Copynumber: 3.0 Consensus size: 38
1581640 TTAATTTTTT
* *
1581650 ATTCATAA-TTCTCAAATTATTTCACTTTAACATTCTAA
1 ATTCCTAACTTCTTAAATTATTTCACTTTAACATTCT-A
* *
1581688 ATTCCTAACTTCTTAAATT-TTGCCACTATAACATTCTA
1 ATTCCTAACTTCTTAAATTATT-TCACTTTAACATTCTA
** * *
1581726 ATTTTTTATTTCTTAAATTATTTCACTTTAACATTCTA
1 ATTCCTAACTTCTTAAATTATTTCACTTTAACATTCTA
1581764 A
1 A
1581765 ATTATTTTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
38 40 0.62
39 24 0.38
ACGTcount: A:0.33, C:0.18, G:0.01, T:0.48
Consensus pattern (38 bp):
ATTCCTAACTTCTTAAATTATTTCACTTTAACATTCTA
Found at i:1582412 original size:18 final size:18
Alignment explanation
Indices: 1582389--1582424 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1582379 TTCGTATATG
* *
1582389 TATTAAAGATATAAAATA
1 TATTAAAAATAAAAAATA
1582407 TATTAAAAATAAAAAATA
1 TATTAAAAATAAAAAATA
1582425 CACATATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
TATTAAAAATAAAAAATA
Found at i:1584993 original size:37 final size:36
Alignment explanation
Indices: 1584952--1585025 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 36
1584942 GGATAAAGAT
*
1584952 AAAAAGAAAATAG-ATAAATAAATGAGTAAAATATATA
1 AAAAAGAAAA-AGCATAAATAAATAAGTAAAATA-ATA
* * *
1584989 AAAAAGTAAAAGCATATATATATAAGTAAAATAATA
1 AAAAAGAAAAAGCATAAATAAATAAGTAAAATAATA
1585025 A
1 A
1585026 TAATAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 6 0.19
37 26 0.81
ACGTcount: A:0.66, C:0.01, G:0.09, T:0.23
Consensus pattern (36 bp):
AAAAAGAAAAAGCATAAATAAATAAGTAAAATAATA
Found at i:1585007 original size:20 final size:20
Alignment explanation
Indices: 1584982--1585019 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1584972 AATGAGTAAA
1584982 ATATATAAAAAAGTAAAAGC
1 ATATATAAAAAAGTAAAAGC
* *
1585002 ATATATATATAAGTAAAA
1 ATATATAAAAAAGTAAAA
1585020 TAATAATAAT
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:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
ATATATAAAAAAGTAAAAGC
Found at i:1586461 original size:105 final size:104
Alignment explanation
Indices: 1586161--1586686 Score: 674
Period size: 105 Copynumber: 5.0 Consensus size: 104
1586151 GCATTGTTCC
* * * ** *
1586161 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCT-GGAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAG-ATTGGGAAGTTG-TTGTTGACA
* * * *
1586225 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
64 AGCAG-CGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
1586267 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGACTCT--GAAT--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAGATTGGGAAGTTGTTGTTGACAAG
*
1586327 CAGCGGTCCCTTCGTCGTGGAGTTGAACTTGCGTTGTCTG
66 CAGC-GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1586367 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAGATTGGGAAGTTGTTGTTGACAAG
1586432 CAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCG-TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1586472 GAGTCCAGTATCCTTCATTGTGAAGTTGAAATTGGCTCTGAA-ATTGGGAAGTTGTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-AAGATTGGGAAGTTGTTGTTGACAA
*
1586536 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
65 GCAGC-GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1586577 GAGTCCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAA-ATTGAGAAGTTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-AAGATTGGGAAGTTG-TTGTTGACA
* * *
1586641 A-CTAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
64 AGC-AG-CGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1586683 GAGT
1 GAGT
1586687 GTCACGATAT
Statistics
Matches: 379, Mismatches: 29, Indels: 24
0.88 0.07 0.06
Matches are distributed among these distances:
99 1 0.00
100 80 0.21
102 9 0.02
104 7 0.02
105 197 0.52
106 84 0.22
107 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (104 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAGATTGGGAAGTTGTTGTTGACAAG
CAGCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:1586605 original size:210 final size:205
Alignment explanation
Indices: 1586161--1586686 Score: 754
Period size: 210 Copynumber: 2.5 Consensus size: 205
1586151 GCATTGTTCC
* * * ** *
1586161 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCT-GGAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAG-ATTGGGAAGTTGTTTGTTGACA
*
1586225 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGA
65 A-CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCACTGTGA
*
1586290 AGTTAAAATTGACTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGGAGTTGAAC
129 AGTTAAAATTGACTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
*
1586355 TTGCGTTGTCTG
194 TTACGTTGTCTG
1586367 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAGATTGGGAAGTTG-TTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAGATTGGGAAGTTGTTTGTTGACAA
* * * * *
1586431 GCAG-CGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAGTATCCTTCATTGTGA
66 -CAGCCG-TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCACTGTGA
* * *
1586495 AGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGT
129 AGTTAAAATTGACTCTG-AA-T--GAAATT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGT
1586560 TGAACTTACGTTGTCTG
189 TGAACTTACGTTGTCTG
* *
1586577 GAGTCCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAA-ATTGAGAAGTTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-AAGATTGGGAAGTTGTTTGTTGACA
1586641 ACTAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT
65 AC-AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT
1586687 GTCACGATAT
Statistics
Matches: 286, Mismatches: 23, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
204 2 0.01
205 79 0.28
206 48 0.17
207 2 0.01
209 5 0.02
210 99 0.35
211 49 0.17
212 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (205 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAGATTGGGAAGTTGTTTGTTGACAA
CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCACTGTGAAG
TTAAAATTGACTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
ACGTTGTCTG
Found at i:1586946 original size:36 final size:36
Alignment explanation
Indices: 1586893--1586962 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
1586883 AGAGAAGCTG
* *
1586893 TCTCAAGGGAGACAAAATTCGTTTCAAGGGAAATTA
1 TCTCAAGCGAGACAAAATTCATTTCAAGGGAAATTA
*
1586929 TCTCAAGCGAGATAAAATTCATTTCAAGGGAAAT
1 TCTCAAGCGAGACAAAATTCATTTCAAGGGAAAT
1586963 GTTTTCAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (36 bp):
TCTCAAGCGAGACAAAATTCATTTCAAGGGAAATTA
Found at i:1587082 original size:106 final size:105
Alignment explanation
Indices: 1586861--1587180 Score: 479
Period size: 106 Copynumber: 3.1 Consensus size: 105
1586851 TTCGTTAAAT
* ** * * *
1586861 TGTTTTCAAAGTTTATGTTTGGAGAGAAGCTGTCTCAAGGGAGACAAAA---TTCGTTTCAAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTTTGTTTCGAGGG
* * *
1586923 AAATTATCTCA-AGCGAGATAAAATTCATTTCAAGGGAAA
66 AAACTATCTCAGAGAGAGAAAAAATTCATTTCAAGGGAAA
*
1586962 TGTTTTCAATGTTTATGTTTCAAGAGAAAATGTCTCAAGGGAGACAAAATTTTTTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTTTGTTTCGAGGG
*
1587027 AAACTATCTCAAGAGAGAGAAAAAAATCATTTCAAGGGAAA
66 AAACTATCTC-AGAGAGAGAAAAAATTCATTTCAAGGGAAA
*
1587068 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTTTGTTTCGAGGG
*
1587133 AAACTATCTCAG-GAGAGAAAAAATTAATTTCAAGGGAAA
66 AAACTATCTCAGAGAGAGAAAAAATTCATTTCAAGGGAAA
1587172 TGTTTTCAA
1 TGTTTTCAA
1587181 GAGAAACTGT
Statistics
Matches: 199, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
101 44 0.22
104 54 0.27
105 3 0.02
106 98 0.49
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (105 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTTTGTTTCGAGGG
AAACTATCTCAGAGAGAGAAAAAATTCATTTCAAGGGAAA
Found at i:1587137 original size:39 final size:39
Alignment explanation
Indices: 1587083--1587157 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
1587073 TCAATGTTTA
* *
1587083 TGTTTCAAGAGAAACTGTCTCAAGG-GAGACAAAATTTTC
1 TGTTTCAAGAGAAACTATCTC-AGGAGAGAAAAAATTTTC
* *
1587122 TGTTTCGAGGGAAACTATCTCAGGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATT
1587158 AATTTCAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 3 0.10
39 28 0.90
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (39 bp):
TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATTTTC
Found at i:1587342 original size:36 final size:36
Alignment explanation
Indices: 1587302--1587415 Score: 113
Period size: 36 Copynumber: 3.2 Consensus size: 36
1587292 CTTTCGAGTG
* *
1587302 AAAACGGTCTCAAGCGAGACAAATCTTGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
* ** * * * **
1587338 AAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
*
1587374 AAAACAGTCTCAAGTGAGACAAAGT-ATGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAA-TCTTGTTTTAAGA
1587410 AAAACA
1 AAAACA
1587416 AATTTGAGTG
Statistics
Matches: 58, Mismatches: 19, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
36 57 0.98
37 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (36 bp):
AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
Found at i:1587394 original size:72 final size:74
Alignment explanation
Indices: 1587261--1587431 Score: 215
Period size: 72 Copynumber: 2.3 Consensus size: 74
1587251 TTAAACAAAA
** * *
1587261 AAAAACAGCCTTGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAACGGTCTCAAGCGAGACAAA-
1 AAAAACAATCTTGAGTGAAAT-AAAT-CCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGACAAAG
*
1587325 TCTTGTTTTAAG
64 T-ATGTTTTAAG
*
1587337 AAAAACAATCTTGAGTGAAATAAAT-CTTCTTTCGAG-AAAAACAGTCTCAAGTGAGACAAAGTA
1 AAAAACAATCTTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGACAAAGTA
1587400 TGTTTTAAG
66 TGTTTTAAG
*
1587409 AAAAACAAAT-TTGAGTGAGATAA
1 AAAAAC-AATCTTGAGTGAAATAA
1587432 TCATCTGTAT
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
72 48 0.56
73 15 0.17
75 4 0.05
76 19 0.22
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (74 bp):
AAAAACAATCTTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGACAAAGTA
TGTTTTAAG
Found at i:1588882 original size:183 final size:183
Alignment explanation
Indices: 1588574--1588925 Score: 589
Period size: 183 Copynumber: 1.9 Consensus size: 183
1588564 CAGGTTTAAC
**
1588574 TGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGTAGTGGAGCAAACACCGAATTGC
1 TGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAACAGTGGAGCAAACACCGAATTGC
** *
1588639 CAAGTGTCCAAGCAATGTCATGATTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGTTTC
66 CAAGTGTCCAAGCAATGTCATGATTTGAACATAATCTATTCATAAAGCCAGGACTTTCGAGTTTC
*
1588704 CTCTATAGCCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCAG
131 CTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCAG
* *
1588757 TGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAACAGTGGAGCAAACACCGAATTGC
1 TGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAACAGTGGAGCAAACACCGAATTGC
** *
1588822 CAAGTGTCTGAGCAGTGTCAT-AGTTTGAACATAATCTATTCATAAAGCCAGGACTTTCGAGTTT
66 CAAGTGTCCAAGCAATGTCATGA-TTTGAACATAATCTATTCATAAAGCCAGGACTTTCGAGTTT
1588886 CCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
130 CCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
1588926 CGGATTTAAT
Statistics
Matches: 157, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
182 1 0.01
183 156 0.99
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (183 bp):
TGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAACAGTGGAGCAAACACCGAATTGC
CAAGTGTCCAAGCAATGTCATGATTTGAACATAATCTATTCATAAAGCCAGGACTTTCGAGTTTC
CTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCAG
Found at i:1593109 original size:19 final size:21
Alignment explanation
Indices: 1593087--1593127 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1593077 TAGGATAAAG
1593087 ATAAA-AAG-AAAATATATAA
1 ATAAATAAGTAAAATATATAA
*
1593106 ATAAATGAGTAAAATATATAA
1 ATAAATAAGTAAAATATATAA
1593127 A
1 A
1593128 AAAGTAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 12 0.63
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.24
Consensus pattern (21 bp):
ATAAATAAGTAAAATATATAA
Found at i:1593133 original size:17 final size:18
Alignment explanation
Indices: 1593089--1593136 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 18
1593079 GGATAAAGAT
1593089 AAAAAG-AAAATATATAA
1 AAAAAGTAAAATATATAA
1593106 ATAAATGAGTAAAATATAT-A
1 A-AAA--AGTAAAATATATAA
1593126 AAAAAGTAAAA
1 AAAAAGTAAAA
1593137 GCATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 3 0.11
19 3 0.11
20 4 0.15
21 9 0.33
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (18 bp):
AAAAAGTAAAATATATAA
Found at i:1593144 original size:20 final size:20
Alignment explanation
Indices: 1593119--1593156 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1593109 AATGAGTAAA
1593119 ATATATAAAAAAGTAAAAGC
1 ATATATAAAAAAGTAAAAGC
* *
1593139 ATATATATATAAGTAAAA
1 ATATATAAAAAAGTAAAA
1593157 TAATAATAAT
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:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
ATATATAAAAAAGTAAAAGC
Found at i:1593163 original size:3 final size:3
Alignment explanation
Indices: 1593155--1593180 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1593145 ATATAAGTAA
1593155 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
1593181 AAGAAAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1604241 original size:30 final size:30
Alignment explanation
Indices: 1604205--1604261 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
1604195 ATTTTGACCC
*
1604205 TCTTAAAATTTTATAAATTCAAATTTAACT
1 TCTTAAAATTTTAAAAATTCAAATTTAACT
*
1604235 TCTTAAAATTTTAAAAATTTAAATTTA
1 TCTTAAAATTTTAAAAATTCAAATTTA
1604262 TCCCCTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (30 bp):
TCTTAAAATTTTAAAAATTCAAATTTAACT
Found at i:1607883 original size:18 final size:18
Alignment explanation
Indices: 1607860--1607900 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1607850 ATAAGCCCGT
*
1607860 AATTTTATCAATTTAAAG
1 AATTTTATCAATTCAAAG
* *
1607878 AATTTTTTCAATTCAACG
1 AATTTTATCAATTCAAAG
1607896 AATTT
1 AATTT
1607901 AGCATTTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (18 bp):
AATTTTATCAATTCAAAG
Found at i:1620590 original size:20 final size:20
Alignment explanation
Indices: 1620565--1620609 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
1620555 GTCATCCAAT
*
1620565 TTTTTAAACCTCAAACCGGA
1 TTTTTAAACCCCAAACCGGA
*
1620585 TTTTTAAACCCCAGACCGGA
1 TTTTTAAACCCCAAACCGGA
1620605 TTTTT
1 TTTTT
1620610 TTCCGGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (20 bp):
TTTTTAAACCCCAAACCGGA
Found at i:1624199 original size:21 final size:21
Alignment explanation
Indices: 1624175--1624219 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
1624165 AAGACAATCA
1624175 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
1624196 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
1624217 AGA
1 AGA
1624220 CATAAGGGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:1624289 original size:33 final size:33
Alignment explanation
Indices: 1624252--1624317 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1624242 AAATAGATGG
*
1624252 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
*
1624285 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1624318 TCTTAAGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1626635 original size:201 final size:201
Alignment explanation
Indices: 1626403--1627143 Score: 1194
Period size: 201 Copynumber: 3.7 Consensus size: 201
1626393 GAAAAATTTA
* * *
1626403 TCGATCCCAGAAACATATGCATTCATAAGTATAATGTAATAGGTAAATTTACAATGTAACTGGTA
1 TCGATCCCAGAAACATATACATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAACCGGTA
*
1626468 TAAATATACCGGTTTTATGAGAGAATAGGTCTACAACACGTATCGACACTTTTTTAATTTTGTGT
66 TAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGT
*
1626533 TGATACTTTTGGTCCAGAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAA
131 CGATACTTTTGGTCCAGAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAA
1626598 AAAGTG
196 AAAGTG
*
1626604 TCGATCCCAGAAACATATACATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAACTGGTA
1 TCGATCCCAGAAACATATACATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAACCGGTA
* *
1626669 TAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGATATTTTTTTAATTTTGTGT
66 TAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGT
* * *
1626734 CGATACTTTTGGTTCATAATGAATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAA
131 CGATACTTTTGGTCCAGAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAA
1626799 AAAGTG
196 AAAGTG
* * * *
1626805 TCGATCTCAGAAACATATGCATCCATAAGTATAATGTATTAGGTAAATTTACAATGTAACCAGTA
1 TCGATCCCAGAAACATATACATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAACCGGTA
* * *
1626870 TAAATATACCGATTTTATAAGAGAATAGGTCTACAACATGTATCGACACATTTTTTTATTTTGTG
66 TAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACAC-TTTTTTAATTTTGTG
*
1626935 TCGATACTTTTGGTCTAGAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCA
130 TCGATACTTTTGGTCCAGAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCA
1627000 AAAAGTG
195 AAAAGTG
* ** * * * * *
1627007 TCGATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTAAATTTTCAATGTAACCGGTA
1 TCGATCCCAGAAACATATACATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAACCGGTA
* * * *
1627072 TAAATATACAGGTTTTATGAGAGAATAGGTCTACGACATATATCGACACGTTTTTAATTTTGTGT
66 TAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGT
1627137 CGATACT
131 CGATACT
1627144 AATTTAAATA
Statistics
Matches: 497, Mismatches: 42, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
201 318 0.64
202 179 0.36
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.33
Consensus pattern (201 bp):
TCGATCCCAGAAACATATACATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAACCGGTA
TAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGT
CGATACTTTTGGTCCAGAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAA
AAAGTG
Found at i:1628874 original size:14 final size:14
Alignment explanation
Indices: 1628855--1628881 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1628845 TATTTGAATT
1628855 TATACAATTTTGTG
1 TATACAATTTTGTG
1628869 TATACAATTTTGT
1 TATACAATTTTGT
1628882 TGTTGCCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (14 bp):
TATACAATTTTGTG
Found at i:1630398 original size:251 final size:251
Alignment explanation
Indices: 1629916--1630407 Score: 697
Period size: 251 Copynumber: 2.0 Consensus size: 251
1629906 TAGAGTTTCT
*
1629916 CATAAAGTGTCGATCCATATATAAAAAGTAACGACCCAAAAAACATCGAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATATATAAAAAGTAACGACCCAAAAAACATCGAAACCCATAATTATAAT
* *
1629981 GTAATGGGTAATTTTTCAATATAACCGGTATAAATATACCGGTTTTATAAAAAATATGTCTACAA
66 GTAATAGGTAATTTTTCAATATAACCGGTATAAATATACCGGTTTTATAAAAAATAGGTCTACAA
* * * * *
1630046 CATTTATCGACACTTATTAGCATTGTGTCGATACTTTTTGTCCAGAATGGATGCCAAACAGGTGG
131 CATGTATCGACACTTATTAACATTGTGTCGATAATTTTTGTCCAAAATGGATGCCAAAAAGGTGG
* * *
1630111 AACCTATAAAGTGTTGATACATTTTCATAGAGTGTCGAT-CCAAAAGGGTTGCACG
196 AACCTATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAGGGTTGCACG
* * ** *
1630166 CATAAAGTGTCGATACATTTATTAAAAGTGTCGATCTC-AAAAACATCGAAACCCATAATTATAA
1 CATAAAGTGTCGATACATATATAAAAAGTAACGA-CCCAAAAAACATCGAAACCCATAATTATAA
* * *
1630230 TGTAATAGGTAATTTTGT-AATATAACCGGTATACATATACCGGTTTTATGAGAGAATAGGTCTA
65 TGTAATAGGTAATTTT-TCAATATAACCGGTATAAATATACCGGTTTTAT-AAAAAATAGGTCTA
* * * *
1630294 TAATATGTATCGACATTTATTAATATTGTGTCGATAATTTTTGTCCAAAATGGATGCCAAAAAGG
128 CAACATGTATCGACACTTATTAACATTGTGTCGATAATTTTTGTCCAAAATGGATGCCAAAAAGG
1630359 -GTGAACGC-ATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAA
193 TG-GAAC-CTATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAA
1630408 ACATCGAAAC
Statistics
Matches: 213, Mismatches: 23, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
250 101 0.47
251 105 0.49
252 7 0.03
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (251 bp):
CATAAAGTGTCGATACATATATAAAAAGTAACGACCCAAAAAACATCGAAACCCATAATTATAAT
GTAATAGGTAATTTTTCAATATAACCGGTATAAATATACCGGTTTTATAAAAAATAGGTCTACAA
CATGTATCGACACTTATTAACATTGTGTCGATAATTTTTGTCCAAAATGGATGCCAAAAAGGTGG
AACCTATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAGGGTTGCACG
Found at i:1632353 original size:14 final size:14
Alignment explanation
Indices: 1632336--1632362 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1632326 AAATCAAGTT
1632336 TTGAAATTAGAAAA
1 TTGAAATTAGAAAA
1632350 TTGAAATTAGAAA
1 TTGAAATTAGAAA
1632363 TTACTCCCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.30
Consensus pattern (14 bp):
TTGAAATTAGAAAA
Found at i:1634637 original size:21 final size:21
Alignment explanation
Indices: 1634611--1634650 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1634601 CAGAACCCCA
*
1634611 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
1634632 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
1634651 TCAAAGGGGG
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:1638538 original size:22 final size:21
Alignment explanation
Indices: 1638496--1638535 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1638486 GAGTTTGTTT
*
1638496 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1638517 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1638536 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1642850 original size:73 final size:72
Alignment explanation
Indices: 1642746--1642880 Score: 177
Period size: 73 Copynumber: 1.9 Consensus size: 72
1642736 ACACTTGTGT
* * *
1642746 AATTTGTGTCGATACTTATTGTCCAGGATGAAT-GCACAAACGAGGTGC-ACGCATAAAGTGTCG
1 AATTTGTGTCGATACTTATTGTCCAGAATGAATACCA-AAAAG-GGTGCAAC-CATAAAGTGTCG
1642809 GCACTTGATA
63 GCACTTGATA
*
1642819 AATTTGTGTCGATACTT-TTGGTCCATAATGAATACCAAAAAGGGTGCAACCATAAAGTGTCG
1 AATTTGTGTCGATACTTATT-GTCCAGAATGAATACCAAAAAGGGTGCAACCATAAAGTGTCG
1642881 ATACATTTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
72 19 0.35
73 34 0.62
74 2 0.04
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (72 bp):
AATTTGTGTCGATACTTATTGTCCAGAATGAATACCAAAAAGGGTGCAACCATAAAGTGTCGGCA
CTTGATA
Found at i:1642893 original size:73 final size:73
Alignment explanation
Indices: 1642724--1642881 Score: 173
Period size: 73 Copynumber: 2.2 Consensus size: 73
1642714 AACAAGTCAA
* * * * * *
1642724 CATAATGTATCGACACTTG-TGTAATTTGTGTCGATACTTATTGTCCAGGATGAATGCACAAACG
1 CATAAAGTGTCGACACTTGAT-AAATTTGTGTCGATACTTATTGTCCAGAATGAATCCACAAAAG
1642788 AGGTGCACG
65 AGGTGCACG
* *
1642797 CATAAAGTGTCGGCACTTGATAAATTTGTGTCGATACTT-TTGGTCCATAATGAATACCA-AAAA
1 CATAAAGTGTCGACACTTGATAAATTTGTGTCGATACTTATT-GTCCAGAATGAAT-CCACAAAA
1642860 G-GGTGCAAC-
64 GAGGTGC-ACG
1642869 CATAAAGTGTCGA
1 CATAAAGTGTCGA
1642882 TACATTTATA
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
72 19 0.26
73 50 0.69
74 3 0.04
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (73 bp):
CATAAAGTGTCGACACTTGATAAATTTGTGTCGATACTTATTGTCCAGAATGAATCCACAAAAGA
GGTGCACG
Found at i:1644722 original size:2 final size:2
Alignment explanation
Indices: 1644717--1644762 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1644707 TATTACACAC
1644717 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1644759 AT AT
1 AT AT
1644763 GTATTTTCAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1645045 original size:24 final size:26
Alignment explanation
Indices: 1644992--1645052 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 26
1644982 TTTTATGGAT
*
1644992 TTTTA-TTATTTTTTTATATCTTTTA
1 TTTTATTTATTTATTTATATCTTTTA
1645017 TTTTATTTATTTATTT-T-TCTTTTCA
1 TTTTATTTATTTATTTATATCTTTT-A
1645042 -TTTATTTATTT
1 TTTTATTTATTT
1645053 TTATTTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
24 17 0.52
25 7 0.21
26 9 0.27
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (26 bp):
TTTTATTTATTTATTTATATCTTTTA
Found at i:1645046 original size:20 final size:19
Alignment explanation
Indices: 1644961--1645064 Score: 83
Period size: 19 Copynumber: 5.6 Consensus size: 19
1644951 TATTTTCTAG
1644961 TATTTTATTTATTTCA-TTT
1 TATTTTATTTATTT-ATTTT
** ** *
1644980 GCTTTTATGGATTT-TTAT
1 TATTTTATTTATTTATTTT
1644998 TATTTT-TTTA--TATCTTT
1 TATTTTATTTATTTAT-TTT
1645015 TATTTTATTTATTTATTTT
1 TATTTTATTTATTTATTTT
*
1645034 TCTTTTCATTTATTTATTTT
1 TATTTT-ATTTATTTATTTT
*
1645054 TATTTAATTTA
1 TATTTTATTTA
1645065 CTTGTTATCA
Statistics
Matches: 65, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
15 1 0.02
16 1 0.02
17 10 0.15
18 10 0.15
19 23 0.35
20 20 0.31
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (19 bp):
TATTTTATTTATTTATTTT
Found at i:1645057 original size:10 final size:10
Alignment explanation
Indices: 1644963--1645059 Score: 60
Period size: 10 Copynumber: 9.9 Consensus size: 10
1644953 TTTTCTAGTA
1644963 TTTTATTTA-
1 TTTTATTTAT
* **
1644972 TTTCATTTGC
1 TTTTATTTAT
**
1644982 TTTTATGGAT
1 TTTTATTTAT
1644992 TTTTA-TTAT
1 TTTTATTTAT
1645001 TTTT-TTATAT
1 TTTTATT-TAT
1645011 CTTTTATTT-T
1 -TTTTATTTAT
*
1645021 ATTTATTTAT
1 TTTTATTTAT
*
1645031 TTTTCTTT-T
1 TTTTATTTAT
*
1645040 CATTTATTTAT
1 -TTTTATTTAT
1645051 TTTTATTTA
1 TTTTATTTA
1645060 ATTTACTTGT
Statistics
Matches: 65, Mismatches: 15, Indels: 15
0.68 0.16 0.16
Matches are distributed among these distances:
9 22 0.34
10 35 0.54
11 6 0.09
12 2 0.03
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:1649406 original size:180 final size:180
Alignment explanation
Indices: 1649104--1649441 Score: 604
Period size: 180 Copynumber: 1.9 Consensus size: 180
1649094 ATTAAATCCG
*
1649104 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTGGATTTATGA
* * * *
1649169 ATAGATTACATTCAGACCATGACATTGCTCGGACACTTGGTAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTACATTCAAACCATGACATTACTCGGACACTTGGCAATTCAGTGTTTGCTCCACTGCTT
1649234 TTGTCAAGCCAAAGACTTTGTGATGAGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAAGCCAAAGACTTTGTGATGAGAACCCTTCAGTGATTTGTCCCTC
*
1649284 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGATTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTGGATTTATGA
1649349 ATAGATTACATTCAAACCATGACATTACTCGGACACTTGGCAATTCAGTGTTTGCTCCACTGCTT
66 ATAGATTACATTCAAACCATGACATTACTCGGACACTTGGCAATTCAGTGTTTGCTCCACTGCTT
* *
1649414 TTTTCAGGCCAAAGACTTTGTGATGAGA
131 TTGTCAAGCCAAAGACTTTGTGATGAGA
1649442 CGAACTCTTC
Statistics
Matches: 150, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
180 150 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (180 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTGGATTTATGA
ATAGATTACATTCAAACCATGACATTACTCGGACACTTGGCAATTCAGTGTTTGCTCCACTGCTT
TTGTCAAGCCAAAGACTTTGTGATGAGAACCCTTCAGTGATTTGTCCCTC
Found at i:1650648 original size:36 final size:36
Alignment explanation
Indices: 1650595--1650724 Score: 102
Period size: 36 Copynumber: 3.6 Consensus size: 36
1650585 CAGATGATTA
* * *
1650595 TCTCACTTGTA-ATTGTTTTTCTTAAAGCATACTTTG
1 TCTCACTTG-AGACTGTTTTACTTAAAGCAGACTTTG
* *
1650631 TCTCACTTGAGACTGTTTTACTTGAAAGAAGA-TTTA
1 TCTCACTTGAGACTGTTTTACTT-AAAGCAGACTTTG
* ** ** * * *
1650667 TTTCACTCAAGTTTGCTTTGCTTAAAACAGACTTTG
1 TCTCACTTGAGACTGTTTTACTTAAAGCAGACTTTG
*
1650703 TCTCACCTGAGACTGTTTTACT
1 TCTCACTTGAGACTGTTTTACT
1650725 CGAAAGAAGA
Statistics
Matches: 68, Mismatches: 23, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
35 7 0.10
36 55 0.81
37 6 0.09
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (36 bp):
TCTCACTTGAGACTGTTTTACTTAAAGCAGACTTTG
Found at i:1650822 original size:73 final size:73
Alignment explanation
Indices: 1650606--1650839 Score: 294
Period size: 72 Copynumber: 3.2 Consensus size: 73
1650596 CTCACTTGTA
* *
1650606 ATTGTTTTTCTT-AAAGCATACTTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTT
1 ATTGTTTTTCTTAAAACCATACTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTATTT
1650670 CACTCAAG
66 CACTCAAG
* * * * * *
1650678 TTTGCTTTGCTTAAAA-CAGACTTTGTCTCACCTGAGACTGTTTTACTCGAAAGAAGATTTATTC
1 ATTGTTTTTCTTAAAACCATACTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTATTT
1650742 CACTCAAG
66 CACTCAAG
* * **
1650750 ATTGTTTTTCTTAAAACCATA-TTTGTCTCTCTTGGGACCATTTTCACTCGAAAGAAGATTTATT
1 ATTGTTTTTCTTAAAACCATACTTTGTCTCACTTGAGACTGTTTT-ACTCGAAAGAAGATTTATT
*
1650814 TCAGTCAAG
65 TCACTCAAG
* * *
1650823 ATTATTTCTCTTGAAAC
1 ATTGTTTTTCTTAAAAC
1650840 AACTTTTTTG
Statistics
Matches: 138, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
72 92 0.67
73 46 0.33
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.41
Consensus pattern (73 bp):
ATTGTTTTTCTTAAAACCATACTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTATTT
CACTCAAG
Found at i:1651057 original size:65 final size:65
Alignment explanation
Indices: 1650903--1651057 Score: 170
Period size: 65 Copynumber: 2.4 Consensus size: 65
1650893 TAGAACTAAG
* * **
1650903 TTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAATATTTCCCTTGAAATTAA
1 TTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAACATTGAAAATATTTCCATTGAAACAAA
* * * * * * *
1650968 TTTTGTATCTCTTAAGATAGTTTCTCTTGAAA-AAAAATCTTTGAATATGTTTCCATTGAAACAA
1 TTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAA-CATTGAAAATATTTCCATTGAAACAA
1651032 A
65 A
*
1651033 TTTCGTCT-TCCTTGAGACATTTTCT
1 TTTCGTCTCT-CTTGAGACAGTTTCT
1651058 TTTGGAACTA
Statistics
Matches: 72, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
64 5 0.07
65 67 0.93
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (65 bp):
TTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAACATTGAAAATATTTCCATTGAAACAAA
Found at i:1651149 original size:102 final size:101
Alignment explanation
Indices: 1650952--1651318 Score: 412
Period size: 102 Copynumber: 3.6 Consensus size: 101
1650942 ATTGAAAATA
** * * * * * * *
1650952 TTTCCCTTGAAATTAATTTTGTATCTCTTAAGATAGTTTCTCTTGAAA-AAAAATCTTTGAATAT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACATAAA-CATTGAAAAC
* * ** * * * *
1651016 GTTTCCATTGAAACAAATTTCGTCTTCCTTGAGACAT
65 ATTTCCCTTGAAATGAATTTTGTCTTTCTTGAGATAG
** * * * * *
1651053 TTTCTTTTGGAACTAAGTTTTGTTTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTAAAAAC
1 TTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAAC
*
1651118 ATTTCCCTTGAAATGAATTTTATCTTTCTTGAGATAG
65 ATTTCCCTTGAAATGAATTTTGTCTTTCTTGAGATAG
* *
1651155 GTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAAC
** *
1651220 ATTTCCCTTGAAATGAATTTTGTCACTCATGAGATAG
65 ATTTCCCTTGAAATGAATTTTGTCTTTCTTGAGATAG
* *
1651257 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAGCATAAACTTTGAAA
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAA
1651319 CAAAATCTTT
Statistics
Matches: 224, Mismatches: 40, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
101 55 0.25
102 165 0.74
103 4 0.02
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.40
Consensus pattern (101 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACA
TTTCCCTTGAAATGAATTTTGTCTTTCTTGAGATAG
Found at i:1651166 original size:167 final size:166
Alignment explanation
Indices: 1650856--1651176 Score: 498
Period size: 167 Copynumber: 1.9 Consensus size: 166
1650846 TTTGTCTGTC
1650856 TTGAAACAAATTTCGTCTCCCTTGAGACATTTTCTTTTAGAACTAAGTTTCGTCTCTCTTGAGAC
1 TTGAAACAAATTTCGTCTCCCTTGAGACATTTTCTTTTAGAACTAAGTTTCGTCTCTCTTGAGAC
* * * *
1650921 AGTTTCTCTTGAAACATAAACATTGAAAATATTTCCCTTGAAATTAATTTTGTATCTCTTAAGAT
66 AGTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTATATCTCTTAAGAT
* *
1650986 AGTTTCTCTTGAAAAAAAATCTTTGAATATGTTTCCA
131 AGGTTCCCTTGAAAAAAAAT-TTTGAATATGTTTCCA
* * * * *
1651023 TTGAAACAAATTTCGTCTTCCTTGAGACATTTTCTTTTGGAACTAAGTTTTGTTTCTCTTGAGAT
1 TTGAAACAAATTTCGTCTCCCTTGAGACATTTTCTTTTAGAACTAAGTTTCGTCTCTCTTGAGAC
* * *
1651088 AGTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTATCTTTCTTGAGAT
66 AGTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTATATCTCTTAAGAT
*
1651153 AGGTTCCCTTGAAACAAAATTTTG
131 AGGTTCCCTTGAAAAAAAATTTTG
1651177 TCTCCCTTGA
Statistics
Matches: 139, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
166 4 0.03
167 135 0.97
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (166 bp):
TTGAAACAAATTTCGTCTCCCTTGAGACATTTTCTTTTAGAACTAAGTTTCGTCTCTCTTGAGAC
AGTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTATATCTCTTAAGAT
AGGTTCCCTTGAAAAAAAATTTTGAATATGTTTCCA
Found at i:1651433 original size:36 final size:36
Alignment explanation
Indices: 1651221--1651454 Score: 129
Period size: 36 Copynumber: 6.4 Consensus size: 36
1651211 ATTGAAAACA
* ** * * *
1651221 TTTCCCTTGAAATGAATTTTGTCACTCATGAGATAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
1651257 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * * *
1651293 TTTCTCTTGAAGCATAAACTTTGAAACAAAATCT-TTGA-ATATG
1 TTTCTCTTGAA--ACAAATTTTG--TC----TCTCTTGAGACA-G
* * *
1651336 TTT-TACGTT-AAACAAATCTCGTCTCCCTTGAGACAG
1 TTTCT-C-TTGAAACAAATTTTGTCTCTCTTGAGACAG
* * **
1651372 TTTCTTTTG-GA-AGTTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
1651406 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAAACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
1651442 TTTCCCTTGAAAC
1 TTTCTCTTGAAAC
1651455 TTCAATCTTT
Statistics
Matches: 151, Mismatches: 30, Indels: 34
0.70 0.14 0.16
Matches are distributed among these distances:
34 26 0.17
35 6 0.04
36 81 0.54
37 3 0.02
38 8 0.05
39 1 0.01
40 1 0.01
41 6 0.04
42 4 0.03
43 11 0.07
44 4 0.03
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:1651512 original size:33 final size:34
Alignment explanation
Indices: 1651472--1651557 Score: 129
Period size: 37 Copynumber: 2.5 Consensus size: 34
1651462 TTTGAATACA
*
1651472 GTTTCTCTTGAAACAC-AAAAAACCTTTGAAATT
1 GTTTCTCTTGAAACACAAAAAAACCTTTGAAAAT
1651505 GTTTCTCTTGAAACACAAAAAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACAC---AAAAAAACCTTTGAAAAT
1651542 GTTTCTCTTGAAACAC
1 GTTTCTCTTGAAACAC
1651558 CAAACCCTCA
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
33 16 0.33
37 32 0.67
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (34 bp):
GTTTCTCTTGAAACACAAAAAAACCTTTGAAAAT
Found at i:1652719 original size:2 final size:2
Alignment explanation
Indices: 1652714--1652743 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1652704 TAGATTAAAC
1652714 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
1652744 GTTAATTTTC
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:1652777 original size:40 final size:39
Alignment explanation
Indices: 1652733--1652822 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 39
1652723 TATATATATA
*
1652733 TATATATATATGTTA-ATTTTCATTATTTGTTTTA-TTAATT
1 TATATATATAT-TTACATTTT-ATTATGT-TTTTATTTAATT
* *
1652773 TATATATATATTTACTATTTTTTTATGTTTTTATTTATTT
1 TATATATATATTTAC-ATTTTATTATGTTTTTATTTAATT
1652813 TATATATATA
1 TATATATATA
1652823 CATATTATCA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
39 8 0.18
40 31 0.70
41 5 0.11
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.64
Consensus pattern (39 bp):
TATATATATATTTACATTTTATTATGTTTTTATTTAATT
Found at i:1652963 original size:9 final size:9
Alignment explanation
Indices: 1652945--1653064 Score: 75
Period size: 9 Copynumber: 13.1 Consensus size: 9
1652935 TATTTTCTAG
1652945 TATTTTATT
1 TATTTTATT
*
1652954 TATTTCATT
1 TATTTTATT
* *
1652963 TGCTTTTATG
1 T-ATTTTATT
*
1652973 GATTTTATT
1 TATTTTATT
1652982 TATTTT-TT
1 TATTTTATT
*
1652990 TATGTCT-TT
1 TAT-TTTATT
1652999 TATTTTATT
1 TATTTTATT
1653008 TA-TTTATT
1 TATTTTATT
*
1653016 TATTTATTTT
1 TATTT-TATT
* *
1653026 TCTTTTCTT
1 TATTTTATT
* *
1653035 TTTGTTTCTT
1 TAT-TTTATT
1653045 TATTTTTATT
1 TA-TTTTATT
*
1653055 TAATTTATT
1 TATTTTATT
1653064 T
1 T
1653065 GTTATCGTTA
Statistics
Matches: 87, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
8 15 0.17
9 45 0.52
10 26 0.30
11 1 0.01
ACGTcount: A:0.17, C:0.05, G:0.04, T:0.74
Consensus pattern (9 bp):
TATTTTATT
Found at i:1652985 original size:4 final size:4
Alignment explanation
Indices: 1652976--1653024 Score: 55
Period size: 4 Copynumber: 11.8 Consensus size: 4
1652966 TTTTATGGAT
*
1652976 TTTA TTTA TTTT TTTA TGTCT- TTTA TTTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA T-T-TA TTTA -TTTA TTTA TTTA TTTA TTTA TTT
1653025 TTCTTTTCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
3 1 0.03
4 31 0.79
5 6 0.15
6 1 0.03
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:1653025 original size:26 final size:26
Alignment explanation
Indices: 1652974--1653064 Score: 80
Period size: 26 Copynumber: 3.5 Consensus size: 26
1652964 GCTTTTATGG
* * *
1652974 ATTTTATTTATTTTTTTATGTCTTTT
1 ATTTTATTTATTTATTTATTTATTTT
1653000 ATTTTATTTATTTATTTATTTATTTT
1 ATTTTATTTATTTATTTATTTATTTT
* *
1653026 -TCTTT-TCTT-TTTGTTTCTTTATTTTT
1 AT-TTTAT-TTATTTATTTATTTA-TTTT
*
1653052 ATTTAATTTATTT
1 ATTTTATTTATTT
1653065 GTTATCGTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
25 12 0.23
26 36 0.68
27 5 0.09
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.77
Consensus pattern (26 bp):
ATTTTATTTATTTATTTATTTATTTT
Found at i:1653077 original size:18 final size:15
Alignment explanation
Indices: 1653043--1653087 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 15
1653033 TTTTTGTTTC
1653043 TTTATTTTTATTTAA
1 TTTATTTTTATTTAA
1653058 TTTATTTGTTATCGTTAA
1 TTTATTT-TTAT--TTAA
*
1653076 TTTATTATTATT
1 TTTATTTTTATT
1653088 CTTTTCTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 8 0.31
16 4 0.15
17 4 0.15
18 10 0.38
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (15 bp):
TTTATTTTTATTTAA
Found at i:1665324 original size:2 final size:2
Alignment explanation
Indices: 1665317--1665345 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1665307 GTACAAAATA
1665317 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1665346 AGAGGTTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1666912 original size:18 final size:19
Alignment explanation
Indices: 1666885--1666921 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
1666875 ATATACAGAA
*
1666885 AGTAAGTTAAT-TATAGTT
1 AGTAAATTAATATATAGTT
1666903 AGTAAATTAATATATAGTT
1 AGTAAATTAATATATAGTT
1666922 GATTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (19 bp):
AGTAAATTAATATATAGTT
Found at i:1666950 original size:37 final size:37
Alignment explanation
Indices: 1666850--1667001 Score: 110
Period size: 45 Copynumber: 3.9 Consensus size: 37
1666840 AAAAAGTTCT
* *
1666850 TTAAAATATATTAATAAATTATTTAATATACAG-AAA
1 TTAAAATATATTAATAAATTATTTAATATATAGTTAA
* ** * * * * *
1666886 GTAAGTTA-ATTATAGTTAGTAAATTAATATATAGTTGA
1 TTAAAATATATTA-A-TAAATTATTTAATATATAGTTAA
1666924 TTAAAATATATTAATAAATTATTTAATATATAGAAAGTAAGTTAA
1 TTAAAATATATTAATAAATTATTT-A-ATAT----A-T-AGTTAA
1666969 TTAAAATATATTAATAAATTATTTAATATATAG
1 TTAAAATATATTAATAAATTATTTAATATATAG
1667002 AAAGTAAGTT
Statistics
Matches: 86, Mismatches: 18, Indels: 23
0.68 0.14 0.18
Matches are distributed among these distances:
35 4 0.05
36 6 0.07
37 22 0.26
38 9 0.10
39 9 0.10
43 5 0.06
44 2 0.02
45 29 0.34
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (37 bp):
TTAAAATATATTAATAAATTATTTAATATATAGTTAA
Found at i:1666973 original size:45 final size:45
Alignment explanation
Indices: 1666918--1667048 Score: 181
Period size: 45 Copynumber: 2.7 Consensus size: 45
1666908 ATTAATATAT
*
1666918 AGTTGATTAAAATATATTAATAAATTATTTAATATATAGAAAGTA
1 AGTTAATTAAAATATATTAATAAATTATTTAATATATAGAAAGTA
1666963 AGTTAATTAAAATATATTAATAAATTATTTAATATATAGAAAGTA
1 AGTTAATTAAAATATATTAATAAATTATTTAATATATAGAAAGTA
1667008 AGTTAGTAAATTATTTAAAATATATTAATAAATTATTTAAT
1 AG-T--T--A--A-TTAAAATATATTAATAAATTATTTAAT
1667049 TATTTAATAT
Statistics
Matches: 77, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
45 46 0.60
46 1 0.01
48 1 0.01
50 1 0.01
52 1 0.01
53 27 0.35
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (45 bp):
AGTTAATTAAAATATATTAATAAATTATTTAATATATAGAAAGTA
Found at i:1667052 original size:30 final size:33
Alignment explanation
Indices: 1666896--1667084 Score: 123
Period size: 31 Copynumber: 5.8 Consensus size: 33
1666886 GTAAGTTAAT
* * *
1666896 TATAGTTAGTAAATTAATATATAGTTGA-TTAAAA
1 TATAGTTAATAAATTATTATA-AATT-ATTTAAAA
*
1666930 TATA-TTAATAAATTATT-T-AA-TATATAGAAA
1 TATAGTTAATAAATTATTATAAATTATTTA-AAA
*
1666960 GTA-AGTTAATTAAAATATATTAATAAATTATTTAATA
1 -TATAGTTAA-T-AAAT-TATT-ATAAATTATTTAAAA
* * *
1666997 TATAG-AAAGTAAGTTA--GTAAATTATTTAAAA
1 TATAGTTAA-TAAATTATTATAAATTATTTAAAA
*
1667028 TATA-TTAATAAATTATT-T-AATTATTTAATA
1 TATAGTTAATAAATTATTATAAATTATTTAAAA
*
1667058 TATAGTTGATAAATTATTATAAATTAT
1 TATAGTTAATAAATTATTATAAATTAT
1667085 GATGTATACA
Statistics
Matches: 122, Mismatches: 15, Indels: 37
0.70 0.09 0.21
Matches are distributed among these distances:
28 1 0.01
29 3 0.02
30 26 0.21
31 38 0.31
32 3 0.02
33 21 0.17
34 10 0.08
35 3 0.02
36 6 0.05
37 6 0.05
38 5 0.04
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (33 bp):
TATAGTTAATAAATTATTATAAATTATTTAAAA
Found at i:1667071 original size:53 final size:53
Alignment explanation
Indices: 1666940--1667080 Score: 171
Period size: 53 Copynumber: 2.6 Consensus size: 53
1666930 TATATTAATA
** * *
1666940 AATTATTTAATATATAGAAAGTAAGTTAATTAAAATATATTAATAAATTATTT
1 AATTATTTAATATATAGTTAGTAAATTATTTAAAATATATTAATAAATTATTT
* *
1666993 AA-TATATAGAAAGTA-AGTTAGTAAATTATTTAAAATATATTAATAAATTATTT
1 AATTATTTA-ATA-TATAGTTAGTAAATTATTTAAAATATATTAATAAATTATTT
1667046 AATTATTTAATATATAGTT-GATAAATTATTATAAA
1 AATTATTTAATATATAGTTAG-TAAATTATT-TAAA
1667081 TTATGATGTA
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
52 8 0.11
53 55 0.74
54 11 0.15
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.43
Consensus pattern (53 bp):
AATTATTTAATATATAGTTAGTAAATTATTTAAAATATATTAATAAATTATTT
Found at i:1668633 original size:74 final size:75
Alignment explanation
Indices: 1668533--1668729 Score: 238
Period size: 74 Copynumber: 2.6 Consensus size: 75
1668523 GACCGTTGAA
* *
1668533 CAGGGGGGAATCGGTACCCCCT-TGGGGGGATCGGTTCCCTCCGAGCATACT-AAAATTCTCGGA
1 CAGGGGGGAATCGGTTCCTCCTATGGGGGGATCGGTTCCCTCCGAGCATACTGAAAA-TCTCGGA
**
1668596 ACAAAAATGTT
65 ACAAAAACATT
* * * * * *
1668607 TA-GGGGGAATCGATTCCTCCTATGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
1 CAGGGGGGAATCGGTTCCTCCTATGGGGGGATCGGTTCCCTCCGAGCATACTGAAAATCTCGGAA
* *
1668671 CCAAACCATT
66 CAAAAACATT
*
1668681 CAGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCA
1 CAGGGGGGAATCGGTTCCTCCTATGGGGGG-ATCGGTTCCCTCCGAGCA
1668730 ATCTGTAATT
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
73 16 0.16
74 42 0.41
75 28 0.27
76 17 0.17
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (75 bp):
CAGGGGGGAATCGGTTCCTCCTATGGGGGGATCGGTTCCCTCCGAGCATACTGAAAATCTCGGAA
CAAAAACATT
Found at i:1671337 original size:21 final size:21
Alignment explanation
Indices: 1671311--1671350 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1671301 CAGAACCCCA
*
1671311 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
1671332 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
1671351 TCAAAGGGGG
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:1671379 original size:20 final size:21
Alignment explanation
Indices: 1671333--1671393 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
1671323 TTCCCCTGTG
1671333 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
1671356 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
1671376 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
1671394 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:1677259 original size:75 final size:76
Alignment explanation
Indices: 1677127--1677326 Score: 262
Period size: 75 Copynumber: 2.7 Consensus size: 76
1677117 CCGTTGAACA
* * * * *
1677127 GGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTT-CCTCCGAGCATACTGGAATTCTCGGAACA
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAACA
** *
1677190 AAAATGTTTAG
66 AAAACATTCAG
* *
1677201 GGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCC
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAACA
*
1677265 AAACCATTCAG
66 AAAACATTCAG
* *
1677276 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCAATCTG
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTG
1677327 TAATTTTTGG
Statistics
Matches: 110, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
74 29 0.26
75 54 0.49
76 27 0.25
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.23
Consensus pattern (76 bp):
GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAACA
AAAACATTCAG
Found at i:1677682 original size:52 final size:46
Alignment explanation
Indices: 1677625--1677739 Score: 146
Period size: 44 Copynumber: 2.4 Consensus size: 46
1677615 TCATAAAATT
1677625 ATTTATTAATATATTTTAAAAAATTTACTAACTTACTTTCTATATATTAA-TA
1 ATTTATTAATATATTTT--AAAA--T--TAACTTAC-TTCTATATATTAAGTA
1677677 ATTTATTAATATATTTT--AATTAACTTACTTCTATATATTAAGTA
1 ATTTATTAATATATTTTAAAATTAACTTACTTCTATATATTAAGTA
1677721 ATTTATTAATATATTTTAA
1 ATTTATTAATATATTTTAA
1677740 TCAACTATAT
Statistics
Matches: 60, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
43 13 0.22
44 27 0.45
46 1 0.02
48 2 0.03
52 17 0.28
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.52
Consensus pattern (46 bp):
ATTTATTAATATATTTTAAAATTAACTTACTTCTATATATTAAGTA
Found at i:1677704 original size:44 final size:44
Alignment explanation
Indices: 1677653--1677745 Score: 161
Period size: 44 Copynumber: 2.1 Consensus size: 44
1677643 AAAAATTTAC
1677653 TAACTTACTTTCTATATATTAA-TAATTTATTAATATATTTTAAT
1 TAACTTAC-TTCTATATATTAAGTAATTTATTAATATATTTTAAT
1677697 TAACTTACTTCTATATATTAAGTAATTTATTAATATATTTTAAT
1 TAACTTACTTCTATATATTAAGTAATTTATTAATATATTTTAAT
*
1677741 CAACT
1 TAACT
1677746 ATATATTAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 13 0.28
44 34 0.72
ACGTcount: A:0.39, C:0.09, G:0.01, T:0.52
Consensus pattern (44 bp):
TAACTTACTTCTATATATTAAGTAATTTATTAATATATTTTAAT
Found at i:1677712 original size:22 final size:22
Alignment explanation
Indices: 1677665--1677806 Score: 81
Period size: 22 Copynumber: 6.1 Consensus size: 22
1677655 ACTTACTTTC
*
1677665 TATATATTAA-TAATTTATTAA
1 TATATATTAATTAACTTATTAA
* *
1677686 TATATTTTAATTAACTTACTT-C
1 TATATATTAATTAACTTA-TTAA
* *
1677708 TATATATTAAGTAATTTATTAA
1 TATATATTAATTAACTTATTAA
* *
1677730 TATATTTTAATCAACTATATATTAA
1 TATATATTAATTAAC--T-TATTAA
* **
1677755 TTTACTAACTATAATTAACTTACTTTC
1 TATA-T-A-T-TAATTAACTTA-TTAA
* *
1677782 TATATATTAAATAATTTATTAA
1 TATATATTAATTAACTTATTAA
1677804 TAT
1 TAT
1677807 TTTAAAGAAC
Statistics
Matches: 89, Mismatches: 21, Indels: 21
0.68 0.16 0.16
Matches are distributed among these distances:
21 11 0.12
22 37 0.42
23 11 0.12
24 2 0.02
25 10 0.11
26 4 0.04
27 6 0.07
28 1 0.01
29 7 0.08
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.51
Consensus pattern (22 bp):
TATATATTAATTAACTTATTAA
Done.