Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008078.1 Hibiscus syriacus cultivar Beakdansim tig00110580_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: 1434613
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 7
Found at i:1318648 original size:20 final size:20
Alignment explanation
Indices: 1318613--1318688 Score: 109
Period size: 20 Copynumber: 3.9 Consensus size: 20
1318603 GTTACGATTT
* *
1318613 TCATTT-CGCATTGCGATTG
1 TCATTTCCGCGTTGCGATAG
*
1318632 CCATTTCCGCGTTGCGATAG
1 TCATTTCCGCGTTGCGATAG
1318652 TCATTTCCGCGTTGCGATAG
1 TCATTTCCGCGTTGCGATAG
*
1318672 TCATTTTCGCGTTGCGA
1 TCATTTCCGCGTTGCGA
1318689 AAGTAAGTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 5 0.10
20 46 0.90
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.37
Consensus pattern (20 bp):
TCATTTCCGCGTTGCGATAG
Found at i:1318699 original size:20 final size:19
Alignment explanation
Indices: 1318634--1318714 Score: 81
Period size: 20 Copynumber: 4.1 Consensus size: 19
1318624 TGCGATTGCC
* *
1318634 ATTTCCGCGTTGCGATAGTC
1 ATTT-CGCGTTGCGAAAGTA
*
1318654 ATTTCCGCGTTGCGATAGTCA
1 ATTT-CGCGTTGCGAAAGT-A
*
1318675 TTTTCGCGTTGCGAAAGTA
1 ATTTCGCGTTGCGAAAGTA
*
1318694 AGTTTCGTGTTGCGAAAGTA
1 A-TTTCGCGTTGCGAAAGTA
1318714 A
1 A
1318715 ACTATTCTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
19 1 0.02
20 50 0.93
21 3 0.06
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.35
Consensus pattern (19 bp):
ATTTCGCGTTGCGAAAGTA
Found at i:1318706 original size:40 final size:40
Alignment explanation
Indices: 1318615--1318708 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
1318605 TACGATTTTC
* * * *
1318615 ATTT-CGCATTGCGATTGCCATTTCCGCGTTGCGATAGTC
1 ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGTA
* *
1318654 ATTTCCGCGTTGCGATAGTCATTTTCGCGTTGCGAAAGTA
1 ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGTA
*
1318694 AGTTT-CGTGTTGCGA
1 A-TTTCCGCGTTGCGA
1318709 AAGTAAACTA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
39 4 0.09
40 39 0.85
41 3 0.07
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.36
Consensus pattern (40 bp):
ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGTA
Found at i:1319089 original size:21 final size:21
Alignment explanation
Indices: 1319063--1319131 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
1319053 CTGTCATTCC
1319063 TCAAGAGTCCCCTCCAATCGT
1 TCAAGAGTCCCCTCCAATCGT
* * **
1319084 TCAAGAGGCCCCTATC-ATCCC
1 TCAAGAGTCCCCT-CCAATCGT
* *
1319105 TCAAGAGTCCCCCCCACT-GT
1 TCAAGAGTCCCCTCCAATCGT
1319125 TCAAGAG
1 TCAAGAG
1319132 GCCACTGTCA
Statistics
Matches: 36, Mismatches: 10, Indels: 5
0.71 0.20 0.10
Matches are distributed among these distances:
20 8 0.22
21 27 0.75
22 1 0.03
ACGTcount: A:0.25, C:0.39, G:0.16, T:0.20
Consensus pattern (21 bp):
TCAAGAGTCCCCTCCAATCGT
Found at i:1319143 original size:41 final size:42
Alignment explanation
Indices: 1319053--1319143 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
1319043 CCCGACTCAC
* * *
1319053 CTGTCATTCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCCCCAATCGTTCAAGAGGCCA
* *
1319095 CTATCATCCCTCAAGAGTCCCCCCCACT-GTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCCCCAATCGTTCAAGAGGCCA
1319136 CTGTCATC
1 CTGTCATC
1319144 GTTAAAGAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 19 0.44
42 24 0.56
ACGTcount: A:0.22, C:0.40, G:0.15, T:0.23
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCCCCAATCGTTCAAGAGGCCA
Found at i:1319152 original size:41 final size:42
Alignment explanation
Indices: 1319056--1319163 Score: 110
Period size: 42 Copynumber: 2.6 Consensus size: 42
1319046 GACTCACCTG
* * * * *
1319056 TCATTCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTAAAGAGTCCCCCCCACTCGTTCAAGAGGCCACTA
* *
1319098 TCATCCCTCAAGAGTCCCCCCCACT-GTTCAAGAGGCCACTG
1 TCATCCCTAAAGAGTCCCCCCCACTCGTTCAAGAGGCCACTA
** *
1319139 TCATCGTTAAAGAGGTCCCTCCCAC
1 TCATCCCTAAAGA-GTCCCCCCCAC
1319164 CATTCCAGAG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 24 0.43
42 32 0.57
ACGTcount: A:0.23, C:0.39, G:0.16, T:0.22
Consensus pattern (42 bp):
TCATCCCTAAAGAGTCCCCCCCACTCGTTCAAGAGGCCACTA
Found at i:1320589 original size:14 final size:14
Alignment explanation
Indices: 1320555--1320593 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
1320545 TTGATTGTTT
1320555 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
1320569 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
1320583 TGTTGATTTGT
1 AATTGATTTGT
1320594 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:1320719 original size:20 final size:20
Alignment explanation
Indices: 1320691--1320733 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
1320681 GTTGAAGGCA
1320691 AAACAGACTATCGCAACGAG
1 AAACAGACTATCGCAACGAG
* *
1320711 AAACTGACTATCGCAATGAG
1 AAACAGACTATCGCAACGAG
1320731 AAA
1 AAA
1320734 ATCGCAAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.14
Consensus pattern (20 bp):
AAACAGACTATCGCAACGAG
Found at i:1320785 original size:19 final size:19
Alignment explanation
Indices: 1320730--1320778 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1320720 ATCGCAATGA
1320730 GAAAATCGCAAAGCGAAAT
1 GAAAATCGCAAAGCGAAAT
*
1320749 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAAAGCGAAAT
1320768 GAAAATCGCAA
1 GAAAATCGCAA
1320779 CGAGAAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.51, C:0.16, G:0.20, T:0.12
Consensus pattern (19 bp):
GAAAATCGCAAAGCGAAAT
Found at i:1320888 original size:20 final size:20
Alignment explanation
Indices: 1320824--1320911 Score: 106
Period size: 20 Copynumber: 4.4 Consensus size: 20
1320814 CGATTTTCTA
1320824 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
***
1320844 GTTGCGATTTTTCA-TTTCGC
1 GTTGCGA-TAGCCATTTTCGC
* * *
1320864 ATTGCGATAGCTATTTTTGC
1 GTTGCGATAGCCATTTTCGC
1320884 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
1320904 GTTGCGAT
1 GTTGCGAT
1320912 TTCCCTGTTG
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
19 2 0.04
20 49 0.91
21 3 0.06
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.41
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:1321150 original size:20 final size:20
Alignment explanation
Indices: 1321125--1321174 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1321115 TTGAAGATGA
1321125 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
1321145 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
1321165 TTGCGATTTT
1 TTGCGATTTT
1321175 GTATTATCTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:1322052 original size:24 final size:24
Alignment explanation
Indices: 1322025--1322078 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1322015 GTATTCGAAA
*
1322025 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
1322049 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
1322073 TTTGAT
1 TTTGAT
1322079 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:1322271 original size:13 final size:13
Alignment explanation
Indices: 1322253--1322277 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1322243 ATATAATCCT
1322253 GAAGAAGAAAAAA
1 GAAGAAGAAAAAA
1322266 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1322278 GTCCCCGAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAAAAA
Found at i:1324654 original size:33 final size:33
Alignment explanation
Indices: 1324608--1324701 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
1324598 GGAAATTACT
* *
1324608 ATCGCAATACGAAATGAAAACCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
1324641 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
1324674 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
1324702 CGAATTTAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:1324664 original size:19 final size:19
Alignment explanation
Indices: 1324588--1324705 Score: 67
Period size: 19 Copynumber: 6.7 Consensus size: 19
1324578 CTTAATGTCT
* **
1324588 ATCGCAATGCGGAAATTACT
1 ATCGCAATGC-GAAATGAAA
*
1324608 ATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
1324627 ACCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1324641 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
1324660 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
1324674 ATCGCAAAGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1324693 ATCGCAACGCGAA
1 ATCGCAATGCGAA
1324706 TTTAGTTTCG
Statistics
Matches: 75, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
14 18 0.24
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 36 0.48
20 9 0.12
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1324743 original size:19 final size:19
Alignment explanation
Indices: 1324701--1324777 Score: 76
Period size: 19 Copynumber: 4.3 Consensus size: 19
1324691 AAATCGCAAC
* *
1324701 GCGAATTTAGTTTCGTGTT
1 GCGATTTTAGTTTCGCGTT
1324720 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
1324739 GCGATTTT-G--T--CGTT
1 GCGATTTTAGTTTCGCGTT
*
1324753 GCGATTTTCA-TTTCGCATT
1 GCGATTTT-AGTTTCGCGTT
1324772 GCGATT
1 GCGATT
1324778 CTCTCGTTGC
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
14 12 0.24
16 1 0.02
17 1 0.02
18 1 0.02
19 34 0.69
ACGTcount: A:0.13, C:0.16, G:0.25, T:0.47
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:1324759 original size:33 final size:33
Alignment explanation
Indices: 1324717--1324842 Score: 182
Period size: 33 Copynumber: 3.8 Consensus size: 33
1324707 TTAGTTTCGT
* * *
1324717 GTTGCGATTTT-AGTTTCGCGTTGCGATTTTGTC
1 GTTGCGATTTTCA-TTTCGCATTGCGATTATATC
* *
1324750 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTATATC
1324783 GTTGCGATTTTCATTTCGCATTGCGATTATATC
1 GTTGCGATTTTCATTTCGCATTGCGATTATATC
*
1324816 GTTGCAATTTTCATTTCGCATTGCGAT
1 GTTGCGATTTTCATTTCGCATTGCGAT
1324843 AGTAATTTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
33 85 0.99
34 1 0.01
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.46
Consensus pattern (33 bp):
GTTGCGATTTTCATTTCGCATTGCGATTATATC
Found at i:1324808 original size:19 final size:19
Alignment explanation
Indices: 1324751--1324842 Score: 87
Period size: 19 Copynumber: 5.4 Consensus size: 19
1324741 GATTTTGTCG
1324751 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1324770 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1324784 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1324803 TTGCGA--TT-ATATCG--
1 TTGCGATTTTCATTTCGCA
*
1324817 TTGCAATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1324836 TTGCGAT
1 TTGCGAT
1324843 AGTAATTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 11 0.19
16 14 0.25
17 14 0.25
19 18 0.32
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1324968 original size:14 final size:14
Alignment explanation
Indices: 1324949--1324985 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1324939 CATCAATTAA
1324949 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1324963 ACAAATCACCTTTT
1 ACAAATCAACTTTT
1324977 ACAAATCAA
1 ACAAATCAA
1324986 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1326401 original size:21 final size:21
Alignment explanation
Indices: 1326335--1326401 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1326325 GTGAATCGGG
*
1326335 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
1326355 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
1326377 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
1326398 CTCT
1 CTCT
1326402 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:1326420 original size:42 final size:41
Alignment explanation
Indices: 1326335--1326457 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
1326325 GTGAATCGGG
* * * *
1326335 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
1326377 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
1326419 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
1326458 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:1326784 original size:93 final size:91
Alignment explanation
Indices: 1326675--1326859 Score: 284
Period size: 91 Copynumber: 2.0 Consensus size: 91
1326665 ATTTCAAACT
* *
1326675 TTCAACCAAAAGAC-AAA-ACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAATTTA
1 TTCAACCAAAAGACAAAATAAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAATTTA
1326738 GCAGAATTGGCAGCAACCGAATAAATTTAC
62 GCAGAATTGGCAGCAACCGAATAAATTTAC
*
1326768 TTCAACCAAAAGACAAAATAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAG
1 TTCAACCAAAAGACAAAATAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAATTTAGCAG
*
1326833 TATTGGCAGCAACCGAATAAATTTAC
66 AATTGGCAGCAACCGAATAAATTTAC
1326859 T
1 T
1326860 AAGCAATCTA
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
91 41 0.48
93 14 0.16
94 3 0.03
95 28 0.33
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (91 bp):
TTCAACCAAAAGACAAAATAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAATTTAGCAG
AATTGGCAGCAACCGAATAAATTTAC
Found at i:1328579 original size:20 final size:20
Alignment explanation
Indices: 1328553--1328612 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
1328543 CTTTTGGTTG
1328553 AAATGAAAATCGCAACGAGA
1 AAATGAAAATCGCAACGAGA
* *
1328573 TAATGAAAATCGCAACGCGA
1 AAATGAAAATCGCAACGAGA
** *
1328593 AAATGACTATCGCAATGAGA
1 AAATGAAAATCGCAACGAGA
1328613 GAATCGCAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.48, C:0.17, G:0.20, T:0.15
Consensus pattern (20 bp):
AAATGAAAATCGCAACGAGA
Found at i:1328635 original size:33 final size:33
Alignment explanation
Indices: 1328552--1328737 Score: 228
Period size: 33 Copynumber: 5.4 Consensus size: 33
1328542 TCTTTTGGTT
1328552 GAAATGAAAATCGCAACGAGATAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGAG---A-G--AATCGCAACGC
** *
1328591 GAAAATGACTATCGCAATGAGAGAATCGCAACGC
1 G-AAATGAAAATCGCAACGAGAGAATCGCAACGC
**
1328625 GAAATGACTATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
1328658 GAAATGAAAATTGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* **
1328691 AAAATGAAAATCGCAACGAGAGAATCGCAGTGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1328724 GAAATGAAAATCGC
1 GAAATGAAAATCGC
1328738 GTTGCGATTT
Statistics
Matches: 134, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
33 103 0.77
34 12 0.09
36 1 0.01
37 1 0.01
39 1 0.01
40 16 0.12
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1328653 original size:14 final size:14
Alignment explanation
Indices: 1328601--1328719 Score: 58
Period size: 14 Copynumber: 7.4 Consensus size: 14
1328591 GAAAATGACT
*
1328601 ATCGCAATGAGAGA
1 ATCGCAACGAGAGA
*
1328615 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
1328632 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
*
1328648 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
*
1328667 ATTGCAACGAGAGA
1 ATCGCAACGAGAGA
*
1328681 ATCGCAACGCAAAATGAAA
1 ATCGCAACG----A-GAGA
1328700 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
1328714 ATCGCA
1 ATCGCA
1328720 GTGCGAAATG
Statistics
Matches: 81, Mismatches: 9, Indels: 30
0.68 0.08 0.25
Matches are distributed among these distances:
14 34 0.42
15 2 0.02
16 7 0.09
17 8 0.10
18 2 0.02
19 28 0.35
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.12
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:1329342 original size:20 final size:20
Alignment explanation
Indices: 1329319--1329412 Score: 116
Period size: 20 Copynumber: 4.7 Consensus size: 20
1329309 CGATAGTAAG
1329319 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * * *
1329339 ATTCACATTACGATTTTCCT
1 ATTCGCATTGCGATTTACGT
*
1329359 AATTCGCATTGCGATTTACTT
1 -ATTCGCATTGCGATTTACGT
* *
1329380 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
1329400 ATTCGCATTGCGA
1 ATTCGCATTGCGA
1329413 ATTATGAAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 44 0.73
21 16 0.27
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:1329366 original size:41 final size:40
Alignment explanation
Indices: 1329319--1329412 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 40
1329309 CGATAGTAAG
* *
1329319 ATTCGCATTGCGATTTACGTATTCACATTACGATTTTCCT
1 ATTCGCATTGCGATTTACGTAATCACATTACGATTTACCT
* * * * *
1329359 AATTCGCATTGCGATTTACTTAATCGCGTTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGTAATCACATTACGATTTACCT
1329400 ATTCGCATTGCGA
1 ATTCGCATTGCGA
1329413 ATTATGAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 13 0.28
41 33 0.72
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.39
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACGTAATCACATTACGATTTACCT
Found at i:1329425 original size:41 final size:42
Alignment explanation
Indices: 1329380--1329476 Score: 108
Period size: 41 Copynumber: 2.4 Consensus size: 42
1329370 CGATTTACTT
* * * * *
1329380 AATCGCGTTGCGATTTACGT-ATTCGCATTGCGAATTATGAA
1 AATCGCATTGCGATATACGTAAATCGCAATGCGAATTAGGAA
**
1329421 AATCGCAACGCGA-ATACGTAAATCGCAATGCGAATTAGGAA
1 AATCGCATTGCGATATACGTAAATCGCAATGCGAATTAGGAA
*
1329462 AATTGCATTGCGATA
1 AATCGCATTGCGATA
1329477 GTCAGTATCG
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
40 5 0.11
41 38 0.86
42 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (42 bp):
AATCGCATTGCGATATACGTAAATCGCAATGCGAATTAGGAA
Found at i:1329433 original size:21 final size:21
Alignment explanation
Indices: 1329409--1329464 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
1329399 TATTCGCATT
*
1329409 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* *
1329430 GCGAA-TACGTAAATCGCAAT
1 GCGAATTACGAAAATCGCAAC
*
1329450 GCGAATTAGGAAAAT
1 GCGAATTACGAAAAT
1329465 TGCATTGCGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:1329473 original size:21 final size:21
Alignment explanation
Indices: 1329402--1329474 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
1329392 ATTTACGTAT
* *
1329402 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
1329423 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
1329443 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
1329464 TTGCATTGCGA
1 TCGCAATGCGA
1329475 TAGTCAGTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:1329534 original size:21 final size:21
Alignment explanation
Indices: 1329510--1329584 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
1329500 TTTTCCAAAT
1329510 TCGCATTGCGAATTGGGAAAA
1 TCGCATTGCGAATTGGGAAAA
**
1329531 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCG-AATTGGGAAAA
** *
1329552 TCGCATTGCG-ATTGTCATAA
1 TCGCATTGCGAATTGGGAAAA
*
1329572 TCGCGTTGCGAAT
1 TCGCATTGCGAAT
1329585 CTGGAAACTG
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.07
20 12 0.28
21 24 0.56
22 4 0.09
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (21 bp):
TCGCATTGCGAATTGGGAAAA
Found at i:1329744 original size:9 final size:9
Alignment explanation
Indices: 1329730--1329762 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
1329720 ATTTTCTCTA
1329730 TATATAAAC
1 TATATAAAC
1329739 TATATAATA-
1 TATATAA-AC
1329748 TATATAAAC
1 TATATAAAC
1329757 TATATA
1 TATATA
1329763 TTATATAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.05
9 20 0.91
10 1 0.05
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (9 bp):
TATATAAAC
Found at i:1329751 original size:18 final size:18
Alignment explanation
Indices: 1329728--1329905 Score: 144
Period size: 18 Copynumber: 10.3 Consensus size: 18
1329718 TTATTTTCTC
*
1329728 TATATATAAACTATATAA
1 TATATATAAACTATATAG
1329746 TATATATAAACTATATA-
1 TATATATAAACTATATAG
**
1329763 T-TATAT-AGTTCAT-TAG
1 TATATATAAACT-ATATAG
*
1329779 TATATATAAACTATATGG
1 TATATATAAACTATATAG
* *
1329797 TATATATAAACTATACAT
1 TATATATAAACTATATAG
**
1329815 TATATAT-ATTTCAT-TAG
1 TATATATAAACT-ATATAG
1329832 TATATATAAACTATATAG
1 TATATATAAACTATATAG
*
1329850 TATATGTAAACTATATA-
1 TATATATAAACTATATAG
**
1329867 T-TATAT-AGTTCAT-TAG
1 TATATATAAACT-ATATAG
1329883 TATATAT-AACATATATAG
1 TATATATAAAC-TATATAG
1329901 TATAT
1 TATAT
1329906 GGACTATGGT
Statistics
Matches: 127, Mismatches: 20, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
15 8 0.06
16 15 0.12
17 29 0.23
18 75 0.59
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (18 bp):
TATATATAAACTATATAG
Found at i:1329906 original size:51 final size:51
Alignment explanation
Indices: 1329728--1329905 Score: 277
Period size: 51 Copynumber: 3.5 Consensus size: 51
1329718 TTATTTTCTC
*
1329728 TATATATAAACTATATAATATATATAAACTATATATTATATAGTTCATTAG
1 TATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAG
* * *
1329779 TATATATAAACTATATGGTATATATAAACTATACATTATATATATTTCATTAG
1 TATATATAAACTATATAGTATATATAAACTATATA-T-TATATAGTTCATTAG
*
1329832 TATATATAAACTATATAGTATATGTAAACTATATATTATATAGTTCATTAG
1 TATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAG
1329883 TATATAT-AACATATATAGTATAT
1 TATATATAAAC-TATATAGTATAT
1329906 GGACTATGGT
Statistics
Matches: 116, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
50 3 0.03
51 65 0.56
52 2 0.02
53 46 0.40
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (51 bp):
TATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAG
Found at i:1329928 original size:65 final size:58
Alignment explanation
Indices: 1329910--1330074 Score: 195
Period size: 58 Copynumber: 2.9 Consensus size: 58
1329900 GTATATGGAC
* *
1329910 TATGGTATATACATACTATATATTATATAGTTCATTACTATATATAACCTATATAGTA
1 TATGGTATATACAAACTATATATTATATAGTTCATTACTATATATAACATATATAGTA
1329968 TATGGTATATACAAACTATATATTATATAGTTCATTACTATATATAA-AT-TATA-TA
1 TATGGTATATACAAACTATATATTATATAGTTCATTACTATATATAACATATATAGTA
* * *
1330023 TCA---TATAT--AAACTATATATT-TAAAAGTTCATTAATATATTATAACCTATATA
1 T-ATGGTATATACAAACTATATATTAT-ATAGTTCATTACTATA-TATAACATATATA
1330075 TTAATTTATT
Statistics
Matches: 97, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
50 1 0.01
51 26 0.27
52 5 0.05
53 6 0.06
54 4 0.04
55 3 0.03
56 5 0.05
57 1 0.01
58 46 0.47
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (58 bp):
TATGGTATATACAAACTATATATTATATAGTTCATTACTATATATAACATATATAGTA
Found at i:1329973 original size:58 final size:56
Alignment explanation
Indices: 1329790--1330074 Score: 250
Period size: 51 Copynumber: 5.0 Consensus size: 56
1329780 ATATATAAAC
* * * *
1329790 TATATGGTATATATAAACTATACATTATATATATTTCATTAGTATATATAAACTATATAG
1 TATATGG--TATATAAACTATATA-T-TATATAGTTCATTACTATATATAACCTATATAG
* *
1329850 TATAT-G----TAAACTATATATTATATAGTTCATTAGTATATATAACATATATAG
1 TATATGGTATATAAACTATATATTATATAGTTCATTACTATATATAACCTATATAG
1329901 TATATGGACTATGGTATATACATACTATATATTATATAGTTCATTACTATATATAACCTATATAG
1 ----T--A-TATGGTATATA-A-ACTATATATTATATAGTTCATTACTATATATAACCTATATAG
1329966 TATATGGTATATACAAACTATATATTATATAGTTCATTACTATATATAA---AT-TA-
1 TATATGGTATAT--AAACTATATATTATATAGTTCATTACTATATATAACCTATATAG
** * *
1330019 TATATCATATATAAACTATATATT-TAAAAGTTCATTAATATATTATAACCTATATA
1 TATATGGTATATAAACTATATATTAT-ATAGTTCATTACTATA-TATAACCTATATA
1330075 TTAATTTATT
Statistics
Matches: 193, Mismatches: 10, Indels: 48
0.77 0.04 0.19
Matches are distributed among these distances:
50 1 0.01
51 56 0.29
52 6 0.03
53 20 0.10
54 2 0.01
55 5 0.03
56 2 0.01
57 1 0.01
58 46 0.24
59 4 0.02
60 6 0.03
61 1 0.01
63 2 0.01
64 1 0.01
65 40 0.21
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (56 bp):
TATATGGTATATAAACTATATATTATATAGTTCATTACTATATATAACCTATATAG
Found at i:1329986 original size:25 final size:25
Alignment explanation
Indices: 1329948--1329995 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1329938 AGTTCATTAC
* *
1329948 TATATATAACCTATATAGTATATGG
1 TATATACAAACTATATAGTATATGG
*
1329973 TATATACAAACTATATATTATAT
1 TATATACAAACTATATAGTATAT
1329996 AGTTCATTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (25 bp):
TATATACAAACTATATAGTATATGG
Found at i:1330030 original size:18 final size:18
Alignment explanation
Indices: 1330007--1330041 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1329997 GTTCATTACT
*
1330007 ATATATAAATTATATATC
1 ATATATAAACTATATATC
1330025 ATATATAAACTATATAT
1 ATATATAAACTATATAT
1330042 TTAAAAGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATATAAACTATATATC
Found at i:1330527 original size:112 final size:111
Alignment explanation
Indices: 1330390--1330715 Score: 451
Period size: 112 Copynumber: 2.9 Consensus size: 111
1330380 AAAATCAATC
* *
1330390 GTGTTCTTCATTTGTTCATCTAGTTCATCCCCAAAAGCCTCATTTGATCATCAAAAACACCTAAA
1 GTGTTCTTCATTTGTTCATCTAGTTCATCCCCAAAACCCTCATTT-ATCTTCAAAAACACCTAAA
* *
1330455 CCAAAATATTTTCGTGTTTTTTTCAATCAAACGCCCAAA-ATTCTTCT
65 CCAAAACATTTTCGTG-TTTTTTCAATCAAACACCCAAATATTCTTCT
* * *
1330502 GTGTTCTTCATTTGTTCATCCAGTTCTTTCCCAAAACCCTCATTTATTCTTCAAAAACACCTAAA
1 GTGTTCTTCATTTGTTCATCTAGTTCATCCCCAAAACCCTCATTTA-TCTTCAAAAACACCTAAA
*
1330567 CCAAAACATTTTCGTGTTTTTTCGATCAAACACCCAAATATTCTTCT
65 CCAAAACATTTTCGTGTTTTTTCAATCAAACACCCAAATATTCTTCT
*
1330614 GTGTTCTTTATTTGTTCATCTAGTT-ATTCCCCAAAACCCTCATTTAATCTTCAAAAACACCTAA
1 GTGTTCTTCATTTGTTCATCTAGTTCA-TCCCCAAAACCCTCATTT-ATCTTCAAAAACACCTAA
* * * *
1330678 ACGCAAACCA-TATCATGTTTATTTCGATCAAACACCCA
64 AC-CAAAACATTTTCGTGTTT-TTTCAATCAAACACCCA
1330716 CAAATTCATC
Statistics
Matches: 193, Mismatches: 15, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
111 21 0.11
112 148 0.77
113 24 0.12
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (111 bp):
GTGTTCTTCATTTGTTCATCTAGTTCATCCCCAAAACCCTCATTTATCTTCAAAAACACCTAAAC
CAAAACATTTTCGTGTTTTTTCAATCAAACACCCAAATATTCTTCT
Found at i:1331225 original size:2 final size:2
Alignment explanation
Indices: 1331218--1331296 Score: 94
Period size: 2 Copynumber: 40.5 Consensus size: 2
1331208 TATATGTTTG
* *
1331218 AT AT AT AT AT AT AT AT AT AT ACT AT -T TT AT -T GAT GT -T A- AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT -AT AT AT AT AT
1331258 AT AT AT AT AT 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 AT AT AT AT AT A
1331297 CTTGTTTACT
Statistics
Matches: 69, Mismatches: 2, Indels: 12
0.83 0.02 0.14
Matches are distributed among these distances:
1 4 0.06
2 62 0.90
3 3 0.04
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1331329 original size:31 final size:31
Alignment explanation
Indices: 1331295--1332051 Score: 769
Period size: 31 Copynumber: 24.5 Consensus size: 31
1331285 TATATATATA
* *
1331295 TACTTGTTTACTGTTGTTGATGTAAATGATA
1 TACTTGTTTATTGTTGTTGATGTAAATGATG
* *
1331326 TAC-TGATTTATTGATGTTGATGTAAATGATA
1 TACTTG-TTTATTGTTGTTGATGTAAATGATG
* *
1331357 TA-TTGGTTTATTGCTATTGATGTAAATGATG
1 TACTT-GTTTATTGTTGTTGATGTAAATGATG
* *
1331388 TAC-CGATTTATTGATGTTGATGTAAATGATG
1 TACTTG-TTTATTGTTGTTGATGTAAATGATG
* * *
1331419 TACTGGTTTATTGCTGTTGATGTAAATGACG
1 TACTTGTTTATTGTTGTTGATGTAAATGATG
* *
1331450 TA-TTGGTTTATT-TCTGTTGAAGTTAATGATG
1 TACTT-GTTTATTGT-TGTTGATGTAAATGATG
*
1331481 TA-TTGGTTTATTGCTGTTGATGTAAATGATG
1 TACTT-GTTTATTGTTGTTGATGTAAATGATG
* * *
1331512 TACTGGTTTATTGATGTTGATGTAAATTATG
1 TACTTGTTTATTGTTGTTGATGTAAATGATG
*
1331543 TACTGGTTTATTGTTGTTGATGTAAATGATG
1 TACTTGTTTATTGTTGTTGATGTAAATGATG
* * * *
1331574 TACTGGTTTATTGTTGTTGATGTTAATTATC
1 TACTTGTTTATTGTTGTTGATGTAAATGATG
* * * *
1331605 TA-TTAGTTTATTGATGTTGATGTTAATTATC
1 TACTT-GTTTATTGTTGTTGATGTAAATGATG
* *
1331636 TA-TTGGTTTATTGTTGTTGATGTTAATTATG
1 TACTT-GTTTATTGTTGTTGATGTAAATGATG
* *
1331667 TACTGGTTTATTGTTGTTGAAGTAAATGATG
1 TACTTGTTTATTGTTGTTGATGTAAATGATG
* *
1331698 TACTGGTTTATTGATGTTGATGTAAATGATG
1 TACTTGTTTATTGTTGTTGATGTAAATGATG
* * *
1331729 TA-TTGGTTTATTGGTGTTGATGTTAATTATG
1 TACTT-GTTTATTGTTGTTGATGTAAATGATG
* *
1331760 TACTGGTTTATTGCTGTTGATGTAAATGATG
1 TACTTGTTTATTGTTGTTGATGTAAATGATG
*
1331791 TA-TTGGTTTATTGATGTTGATGT-AA--AT-
1 TACTT-GTTTATTGTTGTTGATGTAAATGATG
* *
1331818 TACTGGTTTATTGCTGTTGATGTAAATGATG
1 TACTTGTTTATTGTTGTTGATGTAAATGATG
* * *
1331849 TA-TTGATTTATTGATGTTGATGTTAATTATG
1 TACTTG-TTTATTGTTGTTGATGTAAATGATG
* * * * *
1331880 TACTGGTTTATTGATATTGATGTTAATTATG
1 TACTTGTTTATTGTTGTTGATGTAAATGATG
1331911 TAC-TGATTTATTGTTGTTGATGTAAATGATG
1 TACTTG-TTTATTGTTGTTGATGTAAATGATG
* *
1331942 TACATGTTTATTGCTGTTGATGTAAATGATG
1 TACTTGTTTATTGTTGTTGATGTAAATGATG
1331973 TA-TTGGTTTATTGTTGTTGATGTAAATGATG
1 TACTT-GTTTATTGTTGTTGATGTAAATGATG
* * *
1332004 TA-TTGGTTTATTGTTGTTGGTGTTAATTATG
1 TACTT-GTTTATTGTTGTTGATGTAAATGATG
1332035 TAC-TGATTTATTGTTGT
1 TACTTG-TTTATTGTTGT
1332052 AATGTAATCT
Statistics
Matches: 632, Mismatches: 67, Indels: 54
0.84 0.09 0.07
Matches are distributed among these distances:
27 19 0.03
28 5 0.01
30 16 0.03
31 583 0.92
32 9 0.01
ACGTcount: A:0.24, C:0.04, G:0.23, T:0.50
Consensus pattern (31 bp):
TACTTGTTTATTGTTGTTGATGTAAATGATG
Found at i:1331377 original size:62 final size:62
Alignment explanation
Indices: 1331300--1332051 Score: 947
Period size: 62 Copynumber: 12.2 Consensus size: 62
1331290 ATATATACTT
* * * *
1331300 GTTTACTGTTGTTGATGTAAATGATATACTGATTTATTGATGTTGATGTAAATGATATATTG
1 GTTTATTGTTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTATTG
* * * * *
1331362 GTTTATTGCTATTGATGTAAATGATGTACCGATTTATTGATGTTGATGTAAATGATGTACTG
1 GTTTATTGTTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTATTG
* * * ** * *
1331424 GTTTATTGCTGTTGATGTAAATGACGTATTGGTTTATTTCTGTTGAAGTTAATGATGTATTG
1 GTTTATTGTTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTATTG
* * *
1331486 GTTTATTGCTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATTATGTACTG
1 GTTTATTGTTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTATTG
* * * * *
1331548 GTTTATTGTTGTTGATGTAAATGATGTACTGGTTTATTGTTGTTGATGTTAATTATCTATTA
1 GTTTATTGTTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTATTG
* * * * * * * * *
1331610 GTTTATTGATGTTGATGTTAATTATCTATTGGTTTATTGTTGTTGATGTTAATTATGTACTG
1 GTTTATTGTTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTATTG
*
1331672 GTTTATTGTTGTTGAAGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTATTG
1 GTTTATTGTTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTATTG
* * * *
1331734 GTTTATTGGTGTTGATGTTAATTATGTACTGGTTTATTGCTGTTGATGTAAATGATGTATTG
1 GTTTATTGTTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTATTG
* *
1331796 GTTTATTGATGTTGATGT-AA--AT-TACTGGTTTATTGCTGTTGATGTAAATGATGTATTG
1 GTTTATTGTTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTATTG
* * * * * * * *
1331854 ATTTATTGATGTTGATGTTAATTATGTACTGGTTTATTGATATTGATGTTAATTATGTACTG
1 GTTTATTGTTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTATTG
* *
1331916 ATTTATTGTTGTTGATGTAAATGATGTACAT-GTTTATTGCTGTTGATGTAAATGATGTATTG
1 GTTTATTGTTGTTGATGTAAATGATGTAC-TGGTTTATTGATGTTGATGTAAATGATGTATTG
* * * * * *
1331978 GTTTATTGTTGTTGATGTAAATGATGTATTGGTTTATTGTTGTTGGTGTTAATTATGTACTG
1 GTTTATTGTTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTATTG
*
1332040 ATTTATTGTTGT
1 GTTTATTGTTGT
1332052 AATGTAATCT
Statistics
Matches: 607, Mismatches: 77, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
58 53 0.09
59 4 0.01
61 5 0.01
62 544 0.90
63 1 0.00
ACGTcount: A:0.24, C:0.03, G:0.23, T:0.50
Consensus pattern (62 bp):
GTTTATTGTTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTATTG
Found at i:1331415 original size:93 final size:93
Alignment explanation
Indices: 1331295--1332047 Score: 969
Period size: 93 Copynumber: 8.1 Consensus size: 93
1331285 TATATATATA
* * * * * *
1331295 TACTTGTTTACTGTTGTTGATGTAAATGATATACTGATTTATTGATGTTGATGTAAATGATATAT
1 TACTGGTTTATTGCTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTAT
* *
1331360 TGGTTTATTGCTATTGATGTAAATGATG
66 TGGTTTATTGTTGTTGATGTAAATGATG
* * * * *
1331388 TACCGATTTATTGATGTTGATGTAAATGATGTACTGGTTTATTGCTGTTGATGTAAATGACGTAT
1 TACTGGTTTATTGCTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTAT
* *
1331453 TGGTTTATT-TCTGTTGAAGTTAATGATG
66 TGGTTTATTGT-TGTTGATGTAAATGATG
* * *
1331481 TATTGGTTTATTGCTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATTATGTAC
1 TACTGGTTTATTGCTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTAT
1331546 TGGTTTATTGTTGTTGATGTAAATGATG
66 TGGTTTATTGTTGTTGATGTAAATGATG
* * * * * * * * *
1331574 TACTGGTTTATTGTTGTTGATGTTAATTATCTATTAGTTTATTGATGTTGATGTTAATTATCTAT
1 TACTGGTTTATTGCTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTAT
* *
1331639 TGGTTTATTGTTGTTGATGTTAATTATG
66 TGGTTTATTGTTGTTGATGTAAATGATG
* *
1331667 TACTGGTTTATTGTTGTTGAAGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTAT
1 TACTGGTTTATTGCTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTAT
* * *
1331732 TGGTTTATTGGTGTTGATGTTAATTATG
66 TGGTTTATTGTTGTTGATGTAAATGATG
* *
1331760 TACTGGTTTATTGCTGTTGATGTAAATGATGTATTGGTTTATTGATGTTGATGT-AA--AT-TAC
1 TACTGGTTTATTGCTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTAT
*
1331821 TGGTTTATTGCTGTTGATGTAAATGATG
66 TGGTTTATTGTTGTTGATGTAAATGATG
* * * * * * * * *
1331849 TATTGATTTATTGATGTTGATGTTAATTATGTACTGGTTTATTGATATTGATGTTAATTATGTAC
1 TACTGGTTTATTGCTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTAT
*
1331914 TGATTTATTGTTGTTGATGTAAATGATG
66 TGGTTTATTGTTGTTGATGTAAATGATG
* *
1331942 TACAT-GTTTATTGCTGTTGATGTAAATGATGTATTGGTTTATTGTTGTTGATGTAAATGATGTA
1 TAC-TGGTTTATTGCTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTA
* * *
1332006 TTGGTTTATTGTTGTTGGTGTTAATTATG
65 TTGGTTTATTGTTGTTGATGTAAATGATG
*
1332035 TACTGATTTATTG
1 TACTGGTTTATTG
1332048 TTGTAATGTA
Statistics
Matches: 574, Mismatches: 78, Indels: 16
0.86 0.12 0.02
Matches are distributed among these distances:
89 74 0.13
90 4 0.01
92 5 0.01
93 489 0.85
94 2 0.00
ACGTcount: A:0.24, C:0.04, G:0.23, T:0.50
Consensus pattern (93 bp):
TACTGGTTTATTGCTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGATGTAT
TGGTTTATTGTTGTTGATGTAAATGATG
Found at i:1331865 original size:16 final size:16
Alignment explanation
Indices: 1331844--1331923 Score: 55
Period size: 16 Copynumber: 5.1 Consensus size: 16
1331834 TTGATGTAAA
1331844 TGATGTATTGATTTAT
1 TGATGTATTGATTTAT
1331860 TGATG--TTGATGTTAAT
1 TGATGTATTGAT-TT-AT
* *
1331876 T-ATGTACTGGTTTAT
1 TGATGTATTGATTTAT
1331891 TGA--TATTGATGTTAAT
1 TGATGTATTGAT-TT-AT
*
1331907 T-ATGTACTGATTTAT
1 TGATGTATTGATTTAT
1331922 TG
1 TG
1331924 TTGTTGATGT
Statistics
Matches: 49, Mismatches: 5, Indels: 20
0.66 0.07 0.27
Matches are distributed among these distances:
14 10 0.20
15 14 0.29
16 16 0.33
17 9 0.18
ACGTcount: A:0.25, C:0.03, G:0.20, T:0.53
Consensus pattern (16 bp):
TGATGTATTGATTTAT
Found at i:1333528 original size:54 final size:53
Alignment explanation
Indices: 1333465--1333588 Score: 129
Period size: 51 Copynumber: 2.4 Consensus size: 53
1333455 AAATAGTAAG
1333465 AATTAATCATAAAAATAAATTTAATAATAAAATTAT-AAA-A-TAATCATATTTAATTT
1 AATT-ATCAT-AAAAT-AATTT-ATAATAAAATT-TCAAAGAGTAATCATA-TTAATTT
*
1333521 -ATTATCAT--AATAATTTATGATAAAATTTCAAAGAGTAATCATATTAATTT
1 AATTATCATAAAATAATTTATAATAAAATTTCAAAGAGTAATCATATTAATTT
1333571 AATTATCAT--AATAATTTA
1 AATTATCATAAAATAATTTA
1333589 ATTATCATAA
Statistics
Matches: 63, Mismatches: 1, Indels: 13
0.82 0.01 0.17
Matches are distributed among these distances:
48 1 0.02
49 13 0.21
50 13 0.21
51 28 0.44
54 5 0.08
55 3 0.05
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (53 bp):
AATTATCATAAAATAATTTATAATAAAATTTCAAAGAGTAATCATATTAATTT
Found at i:1333580 original size:17 final size:17
Alignment explanation
Indices: 1333558--1333598 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
1333548 TCAAAGAGTA
*
1333558 ATCATATTAATTTAATT
1 ATCATAATAATTTAATT
1333575 ATCATAATAATTTAATT
1 ATCATAATAATTTAATT
1333592 ATCATAA
1 ATCATAA
1333599 GTTTATTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (17 bp):
ATCATAATAATTTAATT
Found at i:1333835 original size:31 final size:32
Alignment explanation
Indices: 1333760--1333835 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
1333750 ATTTACCAGG
1333760 TCAATTTCGGGTTTGGGTTCATATTAGTCGGAT
1 TCAA-TTCGGGTTTGGGTTCATATTAGTCGGAT
* * *
1333793 GCAGTTCGGGTTTGGGTATCATATT-TTCGG-T
1 TCAATTCGGGTTTGGGT-TCATATTAGTCGGAT
1333824 TCAATTCGGGTT
1 TCAATTCGGGTT
1333836 CAGGTCATTC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
31 11 0.30
32 17 0.46
33 9 0.24
ACGTcount: A:0.16, C:0.13, G:0.29, T:0.42
Consensus pattern (32 bp):
TCAATTCGGGTTTGGGTTCATATTAGTCGGAT
Found at i:1336658 original size:20 final size:20
Alignment explanation
Indices: 1336630--1336680 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
1336620 TGCTTGATTC
*
1336630 TGCTTGCTTTTGTTTTATAT
1 TGCTTGCTTCTGTTTTATAT
*
1336650 TGTTTGCTTCTGTTTTATAT
1 TGCTTGCTTCTGTTTTATAT
1336670 TGCTTGCTTCT
1 TGCTTGCTTCT
1336681 ACTTGATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.08, C:0.14, G:0.16, T:0.63
Consensus pattern (20 bp):
TGCTTGCTTCTGTTTTATAT
Found at i:1336689 original size:20 final size:20
Alignment explanation
Indices: 1336646--1336690 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1336636 CTTTTGTTTT
* ** *
1336646 ATATTGTTTGCTTCTGTTTT
1 ATATTGCTTGCTTCTACTTG
1336666 ATATTGCTTGCTTCTACTTG
1 ATATTGCTTGCTTCTACTTG
1336686 ATATT
1 ATATT
1336691 TGTAAGGGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.16, C:0.13, G:0.13, T:0.58
Consensus pattern (20 bp):
ATATTGCTTGCTTCTACTTG
Found at i:1337515 original size:17 final size:18
Alignment explanation
Indices: 1337478--1337512 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1337468 ATCAAATTTA
1337478 TAATATACAAATTATAAT
1 TAATATACAAATTATAAT
1337496 TAATATA-AAATTA-AAT
1 TAATATACAAATTATAAT
1337512 T
1 T
1337513 TAAAAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 6 0.35
18 7 0.41
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
TAATATACAAATTATAAT
Found at i:1337605 original size:17 final size:17
Alignment explanation
Indices: 1337583--1337616 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1337573 GTAATAATAT
1337583 TAATTTAATTATCATAA
1 TAATTTAATTATCATAA
1337600 TAATTTAATTATCATAA
1 TAATTTAATTATCATAA
1337617 GTTTATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATTTAATTATCATAA
Found at i:1337750 original size:16 final size:16
Alignment explanation
Indices: 1337731--1337768 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
1337721 TGAGTTAATT
*
1337731 ACAGGTCAGGTTCATA
1 ACAGGTCAGGTTCAAA
*
1337747 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTCAAA
1337763 ACAGGT
1 ACAGGT
1337769 AGGGTAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (16 bp):
ACAGGTCAGGTTCAAA
Found at i:1337869 original size:31 final size:32
Alignment explanation
Indices: 1337806--1337870 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
1337796 AATTTCGTGT
*
1337806 TTTGGGTTCATATTAGTCGGATGCAGTTCGGG
1 TTTGGGTTCATATTAGTCGGATGCAATTCGGG
* *
1337838 TTTGGGTATCATATT-TTCGG-TTCAATTCGGG
1 TTTGGGT-TCATATTAGTCGGATGCAATTCGGG
1337869 TT
1 TT
1337871 CAGGTCATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 11 0.38
32 11 0.38
33 7 0.24
ACGTcount: A:0.15, C:0.12, G:0.29, T:0.43
Consensus pattern (32 bp):
TTTGGGTTCATATTAGTCGGATGCAATTCGGG
Found at i:1340040 original size:2 final size:2
Alignment explanation
Indices: 1340033--1340059 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1340023 AAAGTTTCTC
1340033 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 A
1340060 GGGTTAGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1341185 original size:24 final size:22
Alignment explanation
Indices: 1341158--1341217 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
1341148 AGTCATAAGG
*
1341158 AACGTGTCACAATAGCATAGAACA
1 AACGTGTCACAA-AGAATAGAA-A
*
1341182 AACGTGCCAC-AAGAATAGAAA
1 AACGTGTCACAAAGAATAGAAA
*
1341203 AAAGTGTCACAAAGA
1 AACGTGTCACAAAGA
1341218 CAAAATTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 9 0.29
22 12 0.39
23 1 0.03
24 9 0.29
ACGTcount: A:0.50, C:0.18, G:0.18, T:0.13
Consensus pattern (22 bp):
AACGTGTCACAAAGAATAGAAA
Found at i:1341611 original size:23 final size:26
Alignment explanation
Indices: 1341561--1341612 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
1341551 ACATGAATAG
*
1341561 TTAACCTATCATCATTAATCAAGATAA
1 TTAACCTATCATCA-TAATCAACATAA
1341588 TTAACCTATCATCA-AA-C-ACATAA
1 TTAACCTATCATCATAATCAACATAA
1341611 TT
1 TT
1341613 TTCTCGTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 7 0.29
24 1 0.04
25 2 0.08
27 14 0.58
ACGTcount: A:0.44, C:0.21, G:0.02, T:0.33
Consensus pattern (26 bp):
TTAACCTATCATCATAATCAACATAA
Found at i:1341789 original size:30 final size:29
Alignment explanation
Indices: 1341753--1341844 Score: 89
Period size: 29 Copynumber: 3.1 Consensus size: 29
1341743 TCAAAAAAAT
*
1341753 CACCGGTGATCAATATATTTATC-GATCTAA
1 CACCGGTCA-CAATATATTT-TCTGATCTAA
* *
1341783 CACCGGTCAGATTATATTTTCTGATCTAA
1 CACCGGTCACAATATATTTTCTGATCTAA
* * *
1341812 CACCGGTCA-AGTTATATTTCCCGATCTAA
1 CACCGGTCACA-ATATATTTTCTGATCTAA
1341841 CACC
1 CACC
1341845 CGTAGCAGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
28 3 0.05
29 44 0.80
30 8 0.15
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (29 bp):
CACCGGTCACAATATATTTTCTGATCTAA
Found at i:1341801 original size:29 final size:28
Alignment explanation
Indices: 1341766--1341844 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 28
1341756 CGGTGATCAA
1341766 TATATTTATCGATCTAACACCGGTC-AGAT
1 TATATTT-TCGATCTAACACCGGTCAAG-T
1341795 TATATTTTCTGATCTAACACCGGTCAAGT
1 TATATTTTC-GATCTAACACCGGTCAAGT
*
1341824 TATATTTCCCGATCTAACACC
1 TATATTT-TCGATCTAACACC
1341845 CGTAGCAGTA
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
28 2 0.04
29 41 0.89
30 3 0.07
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (28 bp):
TATATTTTCGATCTAACACCGGTCAAGT
Found at i:1341917 original size:51 final size:51
Alignment explanation
Indices: 1341862--1341981 Score: 145
Period size: 51 Copynumber: 2.4 Consensus size: 51
1341852 GTAAAGTGTG
* * *
1341862 CCCCTGAACCGCGCTATATGTTGATTTGG-CACCACGTGGAGTATAGCGCGC
1 CCCCTGAACCGCGCTATATGCTGACTGGGTCA-CACGTGGAGTATAGCGCGC
* * *
1341913 CCCCTGTACCGCGCTATATGCTGACTGGGTTACACGTGGGGTATAGCGCGC
1 CCCCTGAACCGCGCTATATGCTGACTGGGTCACACGTGGAGTATAGCGCGC
*
1341964 CCCCT-ACACCACGCTATA
1 CCCCTGA-ACCGCGCTATA
1341982 CGCCACGTAG
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
51 58 0.98
52 1 0.02
ACGTcount: A:0.19, C:0.33, G:0.26, T:0.23
Consensus pattern (51 bp):
CCCCTGAACCGCGCTATATGCTGACTGGGTCACACGTGGAGTATAGCGCGC
Found at i:1346236 original size:18 final size:18
Alignment explanation
Indices: 1346213--1346251 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
1346203 AAGGTGATGA
*
1346213 CGGCATCATATATGGTTG
1 CGGCATCATAAATGGTTG
1346231 CGGCATCATAAATGGTTG
1 CGGCATCATAAATGGTTG
1346249 CGG
1 CGG
1346252 TGGCTGCTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (18 bp):
CGGCATCATAAATGGTTG
Found at i:1347897 original size:111 final size:111
Alignment explanation
Indices: 1347758--1347979 Score: 390
Period size: 111 Copynumber: 2.0 Consensus size: 111
1347748 ATTACAAAAA
1347758 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
1347823 AATTAAAACGTTAAAATGTTACCGTATCAGTAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
* * *
1347869 TTAATTCTTAGTCTAATAATCATTCATTAATTAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
1347934 AATTAAAACTTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
1347980 ACGATTTCCA
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 105 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.38
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:1348084 original size:17 final size:18
Alignment explanation
Indices: 1348043--1348081 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1348033 ATTATATTAC
1348043 TAAAATA-TTAAATAAAG
1 TAAAATACTTAAATAAAG
*
1348060 TAAAATACTTAAATAAAT
1 TAAAATACTTAAATAAAG
1348078 TAAA
1 TAAA
1348082 TACATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
TAAAATACTTAAATAAAG
Found at i:1348326 original size:50 final size:51
Alignment explanation
Indices: 1348272--1348382 Score: 125
Period size: 50 Copynumber: 2.2 Consensus size: 51
1348262 AGATAACCAG
* * * *
1348272 GTATATCGCGGATCAAGGGGCGCGTTATACT-TACGTGGCGCCAAATCACC
1 GTATATCGCGGAGCAAGGGGCGCGCTATACTCCACGTGACGCCAAATCACC
* * * * *
1348322 GTATATCGCGGGGCATGGGGCGTGCTATACTCCACGTGACGTCAAATCAGC
1 GTATATCGCGGAGCAAGGGGCGCGCTATACTCCACGTGACGCCAAATCACC
*
1348373 GTATAGCGCG
1 GTATATCGCG
1348383 ATACAGAGAG
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
50 26 0.52
51 24 0.48
ACGTcount: A:0.23, C:0.25, G:0.31, T:0.22
Consensus pattern (51 bp):
GTATATCGCGGAGCAAGGGGCGCGCTATACTCCACGTGACGCCAAATCACC
Found at i:1351114 original size:8 final size:8
Alignment explanation
Indices: 1351101--1351157 Score: 114
Period size: 8 Copynumber: 7.1 Consensus size: 8
1351091 TTGTAAATTA
1351101 ATGCATGT
1 ATGCATGT
1351109 ATGCATGT
1 ATGCATGT
1351117 ATGCATGT
1 ATGCATGT
1351125 ATGCATGT
1 ATGCATGT
1351133 ATGCATGT
1 ATGCATGT
1351141 ATGCATGT
1 ATGCATGT
1351149 ATGCATGT
1 ATGCATGT
1351157 A
1 A
1351158 ATCTTACTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 49 1.00
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (8 bp):
ATGCATGT
Found at i:1356346 original size:24 final size:24
Alignment explanation
Indices: 1356319--1356394 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
1356309 GTGAGCGAAG
1356319 AGGATGACGATGAGAATGTTGGCA
1 AGGATGACGATGAGAATGTTGGCA
* * *
1356343 AGGA--AAG-TGAAGTTAGTGTT-GAA
1 AGGATGACGATG-AG--AATGTTGGCA
1356366 GAGGATGACGATGAGAATGTTGGCA
1 -AGGATGACGATGAGAATGTTGGCA
1356391 AGGA
1 AGGA
1356395 AAGTGAAGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 16
0.63 0.10 0.27
Matches are distributed among these distances:
21 2 0.05
22 4 0.11
23 2 0.05
24 22 0.58
25 2 0.05
26 4 0.11
27 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.38, T:0.21
Consensus pattern (24 bp):
AGGATGACGATGAGAATGTTGGCA
Found at i:1356373 original size:48 final size:48
Alignment explanation
Indices: 1356315--1356430 Score: 216
Period size: 48 Copynumber: 2.4 Consensus size: 48
1356305 AGCTGTGAGC
1356315 GAAGAGGATGACGATGAGAATGTTGGCAAGGAAAGTGAAGTTAGTGTT
1 GAAGAGGATGACGATGAGAATGTTGGCAAGGAAAGTGAAGTTAGTGTT
1356363 GAAGAGGATGACGATGAGAATGTTGGCAAGGAAAGTGAAGTTAGTGTT
1 GAAGAGGATGACGATGAGAATGTTGGCAAGGAAAGTGAAGTTAGTGTT
1356411 GAAGAGGATGA-GATTGAGAA
1 GAAGAGGATGACGA-TGAGAA
1356431 GAGAAGTGAT
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
47 2 0.03
48 65 0.97
ACGTcount: A:0.37, C:0.03, G:0.38, T:0.22
Consensus pattern (48 bp):
GAAGAGGATGACGATGAGAATGTTGGCAAGGAAAGTGAAGTTAGTGTT
Found at i:1356410 original size:24 final size:24
Alignment explanation
Indices: 1356335--1356411 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
1356325 ACGATGAGAA
1356335 TGTTGGCAAGGAAAGTGAAGTTAG
1 TGTTGGCAAGGAAAGTGAAGTTAG
* * *
1356359 TGTT-GAAGAGGATGACGATG-AG--AA
1 TGTTGGCA-AGGA--AAG-TGAAGTTAG
1356383 TGTTGGCAAGGAAAGTGAAGTTAG
1 TGTTGGCAAGGAAAGTGAAGTTAG
1356407 TGTTG
1 TGTTG
1356412 AAGAGGATGA
Statistics
Matches: 39, Mismatches: 6, Indels: 16
0.64 0.10 0.26
Matches are distributed among these distances:
21 2 0.05
22 4 0.10
23 2 0.05
24 23 0.59
25 2 0.05
26 4 0.10
27 2 0.05
ACGTcount: A:0.32, C:0.04, G:0.38, T:0.26
Consensus pattern (24 bp):
TGTTGGCAAGGAAAGTGAAGTTAG
Found at i:1359014 original size:3 final size:3
Alignment explanation
Indices: 1359006--1359031 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1358996 GAATTGGGTT
1359006 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
1359032 TCAGATGTAT
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:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:1364202 original size:21 final size:21
Alignment explanation
Indices: 1364181--1364219 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1364171 ATCCTTAAGA
1364181 AAGTA-GAGGTCGAGGTTGAG
1 AAGTATGAGGTCGAGGTTGAG
* *
1364201 AAGTATGGGGTCGTGGTTG
1 AAGTATGAGGTCGAGGTTG
1364220 GGGCTAGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.23, C:0.05, G:0.46, T:0.26
Consensus pattern (21 bp):
AAGTATGAGGTCGAGGTTGAG
Found at i:1376776 original size:24 final size:25
Alignment explanation
Indices: 1376748--1376800 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
1376738 TAAACCTTTT
* *
1376748 TATATTTTCAATTTTGTAAA-AAAA
1 TATATTATAAATTTTGTAAAGAAAA
*
1376772 TATA-TATAAATTTTTTAAAGAAAA
1 TATATTATAAATTTTGTAAAGAAAA
1376796 TATAT
1 TATAT
1376801 AAATATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (25 bp):
TATATTATAAATTTTGTAAAGAAAA
Found at i:1376801 original size:22 final size:23
Alignment explanation
Indices: 1376757--1376812 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 23
1376747 TTATATTTTC
*
1376757 AATTTTGTAAAAAAATATATATA
1 AATTTTTTAAAAAAATATATATA
1376780 AATTTTTTAAAGAAAATATATA-A
1 AATTTTTTAAA-AAAATATATATA
1376803 ATATTTTTTA
1 A-ATTTTTTA
1376813 GCTTGTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 12 0.40
24 18 0.60
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (23 bp):
AATTTTTTAAAAAAATATATATA
Found at i:1377605 original size:2 final size:2
Alignment explanation
Indices: 1377598--1377626 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1377588 GAATAACTGT
1377598 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 T
1377627 TATGGTAAGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1379676 original size:11 final size:11
Alignment explanation
Indices: 1379660--1379684 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1379650 GGGAAAGGTG
1379660 GGTTAATATAC
1 GGTTAATATAC
1379671 GGTTAATATAC
1 GGTTAATATAC
1379682 GGT
1 GGT
1379685 GTTATCGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (11 bp):
GGTTAATATAC
Found at i:1380207 original size:170 final size:168
Alignment explanation
Indices: 1379925--1380447 Score: 661
Period size: 182 Copynumber: 3.0 Consensus size: 168
1379915 GCGCTACCGG
* * * * *
1379925 ATATATTGAAAGTATCAATAAATTAATATAATTGTTGACACTTTTGTAATTTAAAAGAGAAGAAG
1 ATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTGTAATTTAAAAGAGAAGAAG
* * *
1379990 TTATAACGCCTAAAAGGTGTCGATACTTTATAAAAATGTGTCGATCCATAGCAATATAACAAGTA
66 TTATAGCGCCTAAAA-GTGTCGATACTTTATAAAAATGTATCGATCCATAGCAATATAAC-GGTA
*
1380055 ATAATATGACAAAATAGGTCTCGAAATGATAAAACCGGTA
129 ATAATATGACAAAACAGGTCTCGAAATGATAAAACCGGTA
*
1380095 ATATATTGAAAGTGTCGATAAATTAATATAAGTATCAACACTTTTGTAATTTAAAAGAGAAGAAG
1 ATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTGTAATTTAAAAGAGAAGAAG
* * *
1380160 TTATAGCGCCTGAAAAGTGTCGATACTTTATACAAATGTATCGATCCATAGTAATATATCCGGTA
66 TTATAGCGCCT-AAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAGCAATATA-ACGGTA
*
1380225 ATAATATGACAAAAGAGGTCTCGAAATGATAAAACCGGTAAAAAGATA
129 ATAATATGACAAAACAGGTCTCGAAATGATAAAACC-G------G-TA
* *
1380273 TCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTCGTAATTTAAAAGAAAA
1 ----ATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTGTAATTTAAAAGAGAA
* *
1380338 GAAATTATAGCGCCTAAAAAGTGTCGATACTTTA-AGAAAATGTATCGATCCATAACAATATAAT
62 GAAGTTATAGCGCCT-AAAAGTGTCGATACTTTATA-AAAATGTATCGATCCATAGCAATATAA-
* * * * *
1380402 CGGTAAAAATATGATAAAACCGGTATCGAAATGACAAAACCGGTA
124 CGGTAATAATATGACAAAACAGGTCTCGAAATGATAAAACCGGTA
1380447 A
1 A
1380448 AGCGCTACCA
Statistics
Matches: 309, Mismatches: 28, Indels: 32
0.84 0.08 0.09
Matches are distributed among these distances:
170 147 0.48
171 6 0.02
174 2 0.01
175 1 0.00
177 1 0.00
178 2 0.01
181 2 0.01
182 148 0.48
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.28
Consensus pattern (168 bp):
ATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTGTAATTTAAAAGAGAAGAAG
TTATAGCGCCTAAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAGCAATATAACGGTAAT
AATATGACAAAACAGGTCTCGAAATGATAAAACCGGTA
Found at i:1382108 original size:411 final size:402
Alignment explanation
Indices: 1381575--1382583 Score: 1453
Period size: 411 Copynumber: 2.5 Consensus size: 402
1381565 AGGCAAAAAT
* *
1381575 GTCCATAATGTGTTTTCCAAACAAAATAAGTTCACAAATAAATGTCGACACATTTATATCAAGTG
1 GTCCATAATGTGTTTTCCAAACAAAACAAGTTCACAAA-AAGTGTCGACACATTTATATCAAGTG
1381640 TCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGGTT
65 TCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGGTT
*
1381705 TAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCAAAACTTTATTCATTTGTGTC
130 TAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCAACACTTTATTCATTTGTGTC
1381770 GATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTATAA
195 GATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTATAA
* *
1381835 AAAATATCAATACC-AAAAACATCGAAATC-CGTAATTATAATGTAATAGGTAAAATAACAATGT
260 AAAATATCAAT-CCTAAAAACATCGAAA-CACATAATTATAATGTAATAGGTAAAATAACAATAT
*
1381898 AACCGGTCTAAATATACCGGTT-TATGAGAAAAGAGGTATTCATAAAGTATCAACACTTTATAAA
323 AACCGGTCTAAATATACCGGTTAT-TGA-AAAA-AGGTATACATAAAGTATCAACACTTTATAAA
* * *
1381962 TATAAATTTGTACCGATACTTTGC
385 T-T---TGTGT--CGACACTTTAC
1381986 GTCCATAATGTGTTTTCCAAACAAAACAAGTTCACAAACAAGTGTCGACACATTTATATCAAGTG
1 GTCCATAATGTGTTTTCCAAACAAAACAAGTTCACAAA-AAGTGTCGACACATTTATATCAAGTG
*
1382051 TCGATCCCAAAAATATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGGTT
65 TCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGGTT
*
1382116 TAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGTGTC
130 TAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCAACACTTTATTCATTTGTGTC
1382181 GATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTATAA
195 GATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTATAA
* * * * *
1382246 AAAGTGTCAATCCTACAAACATCGAAACACATAATTATAATGTAATCGGTAACATAACAATATAA
260 AAAATATCAATCCTAAAAACATCGAAACACATAATTATAATGTAATAGGTAAAATAACAATATAA
* * * * * *
1382311 CCGGTCTAAATATACTGGTTATTTAAAAAAGGTATACATAATGTATCGATACTTTATACATTTGT
325 CCGGTCTAAATATACCGGTTATTGAAAAAAGGTATACATAAAGTATCAACACTTTATAAATTTGT
* *
1382376 GTTGACACTTTAT
390 GTCGACACTTTAC
*** * * **
1382389 GTCCATAATAAATTTT-C---C-AAACAAGTTCACGAAAAAGTGTCGATACATTTAGAAAAAGTG
1 GTCCATAATGTGTTTTCCAAACAAAACAAGTTCAC-AAAAAGTGTCGACACATTTATATCAAGTG
* * * *
1382449 TCGATCCTAAAAACATCGAAACCTGTAATTATAATGTAATAAGTCACTTTACAATGTAACCGGTT
65 TCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGGTT
* * * *
1382514 TAAATTTACCGGTTTTATGAGAAAATATGTCTACAGA-ATGTATCAACACTTT-TTAAATTAGTG
130 TAAATTTACCGGTTTTATGAGAAAATAGGTCTACA-ATATGTGTCAACACTTTATT-CATTTGTG
1382577 TCGATAC
193 TCGATAC
1382584 TTTTGAAAAT
Statistics
Matches: 550, Mismatches: 42, Indels: 25
0.89 0.07 0.04
Matches are distributed among these distances:
397 2 0.00
398 154 0.28
399 5 0.01
402 1 0.00
403 20 0.04
405 4 0.01
408 1 0.00
409 27 0.05
410 7 0.01
411 328 0.60
412 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.31
Consensus pattern (402 bp):
GTCCATAATGTGTTTTCCAAACAAAACAAGTTCACAAAAAGTGTCGACACATTTATATCAAGTGT
CGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGGTTT
AAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCAACACTTTATTCATTTGTGTCG
ATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTATAAA
AAATATCAATCCTAAAAACATCGAAACACATAATTATAATGTAATAGGTAAAATAACAATATAAC
CGGTCTAAATATACCGGTTATTGAAAAAAGGTATACATAAAGTATCAACACTTTATAAATTTGTG
TCGACACTTTAC
Found at i:1382287 original size:201 final size:199
Alignment explanation
Indices: 1381617--1382584 Score: 1035
Period size: 201 Copynumber: 4.8 Consensus size: 199
1381607 CACAAATAAA
* ** *
1381617 TGTCGACACATTTATATCAAGTGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAG
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAA-CCGTAATTATAATGTAATAG
*
1381682 GTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTG
65 GTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTA
*
1381747 TCAAAACTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGA
130 TCAACACTTTATTCATTTGTGTCGATAC-TGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGA
1381812 ACAAAG
194 ACAAAG
* * * *
1381818 TGTCGATACATTTATAAAAAATATCAATACCAAAAACATCGAAATCCGTAATTATAATGTAATAG
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAA-CCGTAATTATAATGTAATAG
* ** * * * * * * *
1381883 GTAAAATAACAATGTAACCGGTCTAAATATACCGG-TTTATGAGAAAAGAGGTATTC-ATAAAGT
65 GTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAAT-ATGT
* ** * *
1381946 ATCAACACTTTATAAATATAAATTTGTACCGATACT-TTGCGTCCATAATGTGTTTTCCAAACAA
129 ATCAACAC-TT-T--AT-T-CATTTGTGTCGATACTGTT--GTCCAGAATGT-ATTTCCAAAC--
* *
1382010 AACAAGTTCACAAAC-AAG
183 --CAAGTGCACGAACAAAG
* ** * *
1382028 TGTCGACACATTTATATCAAGTGTCGATCCCAAAAATATCGAAACCCGTAACTATAATGTAATAG
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAA-CCGTAATTATAATGTAATAG
*
1382093 GTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTG
65 GTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTA
*
1382158 TCGACACTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGA
130 TCAACACTTTATTCATTTGTGTCGATAC-TGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGA
1382223 ACAAAG
194 ACAAAG
* * * * *
1382229 TGTCGATACATTTATAAAAAGTGTCAATCCTACAAACATCGAAACACATAATTATAATGTAATCG
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAAC-CGTAATTATAATGTAATAG
* * * * * * * *
1382294 GTAACATAACAATATAACCGGTCTAAATATACTGGTTATT-T-A-AAAA-AGGTATAC-ATAATG
65 GTCACTTTACAATGTAACCGGTTTAAATTTACCGGTT-TTATGAGAAAATAGGTCTACAAT-ATG
* * * * * * * ** *
1382354 TATCGATACTTTATACATTTGTGTTGACACTTTATGTCCATAATAAATTTTCCAAA-CAAGTTCA
128 TATCAACACTTTATTCATTTGTGTCGATACTGT-TGTCCAGAATGTA-TTTCCAAACCAAGTGCA
1382418 CGAA-AAAG
191 CGAACAAAG
* * *
1382426 TGTCGATACATTTAGAAAAAGTGTCGATCCTAAAAACATCGAAACCTGTAATTATAATGTAATAA
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACC-GTAATTATAATGTAATAG
*
1382491 GTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATATGTCTACAGA-ATGT
65 GTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACA-ATATGT
* *
1382555 ATCAACACTTT-TTAAATTAGTGTCGATACT
129 ATCAACACTTTATT-CATTTGTGTCGATACT
1382585 TTTGAAAATT
Statistics
Matches: 628, Mismatches: 107, Indels: 65
0.79 0.13 0.08
Matches are distributed among these distances:
196 3 0.00
197 96 0.15
198 57 0.09
199 19 0.03
200 71 0.11
201 174 0.28
202 4 0.01
204 13 0.02
205 24 0.04
206 24 0.04
207 13 0.02
209 1 0.00
210 89 0.14
211 38 0.06
212 2 0.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.31
Consensus pattern (199 bp):
TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCGTAATTATAATGTAATAGG
TCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTAT
CAACACTTTATTCATTTGTGTCGATACTGTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAAC
AAAG
Found at i:1386183 original size:197 final size:198
Alignment explanation
Indices: 1385750--1386227 Score: 520
Period size: 197 Copynumber: 2.4 Consensus size: 198
1385740 GATTTTGTGT
* * * *
1385750 CGATAAATATAATGTAATAGGTAAATTTCTAATGTAACCGG-TAGAAATATACCGGGTTCATGAG
1 CGATAATTATAATGTAATAGGTAAATTTATAATGTAATCGGTTA-AAATATACC-GGTTAATGAG
* * * *
1385814 AGAATAGGTCAACATAAAGTATTGACACTTTGTTTAATTTGTGACGATACATTTTTTCAAAATGA
64 AGAATAGGTCAACATAAAGTATCGACACTCTGTTAAATATGTGACGATACATTTTTTCAAAATGA
* * *
1385879 ATGGCAAACGAGGTGTACGCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCTCGAAACAT
129 AAGACAAACGAGGTGCACGCATAAAGTGTCGATACA-TTTTAAAAAGTATCGATCCTCGAAACAT
*
1385944 CGAAAT
193 CGAAAC
* * * * *
1385950 CGATAATTATTATGTAACAGGTAAATTTACAATGTAATTGGTTAAAATATACCGGTTAATTAGCA
1 CGATAATTATAATGTAATAGGTAAATTTATAATGTAATCGGTTAAAATATACCGGTTAATGAG-A
* * * * *
1386015 -AATAGGTCTACATTATGTATCGACACTCT-TTAAATATGTGTCGATA-TTTTTTTCCAAAAT-A
65 GAATAGGTCAACATAAAGTATCGACACTCTGTTAAATATGTGACGATACATTTTTT-CAAAATGA
* * *
1386076 AAGCACAAACGAGTTGCATGCATAAAGTGTCGATACA-TTTAAAATTGTATCGATCCT-GAAAAC
129 AAG-ACAAACGAGGTGCACGCATAAAGTGTCGATACATTTTAAAA-AGTATCGATCCTCG-AAAC
1386139 ATCGAAAC
191 ATCGAAAC
* * * * * *
1386147 CGATATTTATAATGTAATAGGTCAATTTATAATGTAATCGGTTTAAATTTACCGTTTTTATGAGA
1 CGATAATTATAATGTAATAGGTAAATTTATAATGTAATCGGTTAAAATATACCG-GTTAATGAGA
* * *
1386212 AAATATGTCAATATAA
65 GAATAGGTCAACATAA
1386228 GCACTACCTA
Statistics
Matches: 230, Mismatches: 40, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
196 8 0.03
197 78 0.34
198 66 0.29
199 32 0.14
200 44 0.19
201 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (198 bp):
CGATAATTATAATGTAATAGGTAAATTTATAATGTAATCGGTTAAAATATACCGGTTAATGAGAG
AATAGGTCAACATAAAGTATCGACACTCTGTTAAATATGTGACGATACATTTTTTCAAAATGAAA
GACAAACGAGGTGCACGCATAAAGTGTCGATACATTTTAAAAAGTATCGATCCTCGAAACATCGA
AAC
Found at i:1386326 original size:87 final size:87
Alignment explanation
Indices: 1386222--1386384 Score: 272
Period size: 87 Copynumber: 1.9 Consensus size: 87
1386212 AAATATGTCA
* *
1386222 ATATAAGCACTACCTATTACATTATATAAGCGCTACCTAATTTGTTATTGTACTTAATAATATTT
1 ATATAAGCACTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTACTTAATAATATTT
1386287 CCGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
* * * *
1386309 ATATAAGCGCTACCTATTACATTATCTAAGCACTACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCACTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTACTTAATAATATTT
1386374 CCGGTTAAATG
66 CCGGTTAAATG
1386385 ATATAACATA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (87 bp):
ATATAAGCACTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTACTTAATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:1386356 original size:23 final size:23
Alignment explanation
Indices: 1386306--1386350 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1386296 TGCCTATTTT
* *
1386306 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCACTACCTAATAC
*
1386329 ATTATCTAAGCACTACCTAATA
1 ATTATATAAGCACTACCTAATA
1386351 TGTTATTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCACTACCTAATAC
Found at i:1393012 original size:32 final size:32
Alignment explanation
Indices: 1392971--1393126 Score: 210
Period size: 32 Copynumber: 4.9 Consensus size: 32
1392961 GAGTCGAGGG
*
1392971 TTACCTATGTCTTTCGGGACATATGTACAATA
1 TTACCTATGTCTTTCGGGACATATGGACAATA
*
1393003 TTACCTATGTCTTTCGGGACATATGGACAGTA
1 TTACCTATGTCTTTCGGGACATATGGACAATA
* ** *
1393035 TTACCTATGTCTTTAGGGACATATGGGTAGTA
1 TTACCTATGTCTTTCGGGACATATGGACAATA
1393067 TTACCTATGT-TATTCGGGACATATGGACAAT-
1 TTACCTATGTCT-TTCGGGACATATGGACAATA
*
1393098 TTACCTATGT-TCTTCGGGACATGTGGACA
1 TTACCTATGTCT-TTCGGGACATATGGACA
1393127 GATTATTATA
Statistics
Matches: 112, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
31 28 0.25
32 84 0.75
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (32 bp):
TTACCTATGTCTTTCGGGACATATGGACAATA
Found at i:1399850 original size:77 final size:77
Alignment explanation
Indices: 1399723--1399878 Score: 312
Period size: 77 Copynumber: 2.0 Consensus size: 77
1399713 TGTGCTTGGA
1399723 CAACGTAGAGGTAAAATCTTTCATGTTATATATTATGCTGGTCGTACCTTAAATGAGGTACAATT
1 CAACGTAGAGGTAAAATCTTTCATGTTATATATTATGCTGGTCGTACCTTAAATGAGGTACAATT
1399788 AAACTATACCAC
66 AAACTATACCAC
1399800 CAACGTAGAGGTAAAATCTTTCATGTTATATATTATGCTGGTCGTACCTTAAATGAGGTACAATT
1 CAACGTAGAGGTAAAATCTTTCATGTTATATATTATGCTGGTCGTACCTTAAATGAGGTACAATT
1399865 AAACTATACCAC
66 AAACTATACCAC
1399877 CA
1 CA
1399879 CTGAGAAAGA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.32
Consensus pattern (77 bp):
CAACGTAGAGGTAAAATCTTTCATGTTATATATTATGCTGGTCGTACCTTAAATGAGGTACAATT
AAACTATACCAC
Found at i:1400375 original size:12 final size:12
Alignment explanation
Indices: 1400358--1400394 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
1400348 TGAAGCCTTT
1400358 AAACCGAACCGA
1 AAACCGAACCGA
1400370 AAACCGAACCGA
1 AAACCGAACCGA
1400382 AAACCGAACCGA
1 AAACCGAACCGA
1400394 A
1 A
1400395 CTAAACTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.51, C:0.32, G:0.16, T:0.00
Consensus pattern (12 bp):
AAACCGAACCGA
Found at i:1403433 original size:18 final size:18
Alignment explanation
Indices: 1403410--1403449 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
1403400 CCCCATCCCG
*
1403410 CTGAAGCAGAAGAGCCCA
1 CTGAAGCAAAAGAGCCCA
1403428 CTGAAGCAAAAGAGCCCA
1 CTGAAGCAAAAGAGCCCA
1403446 CTGA
1 CTGA
1403450 CCCTGATCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.28, G:0.25, T:0.07
Consensus pattern (18 bp):
CTGAAGCAAAAGAGCCCA
Found at i:1408948 original size:20 final size:21
Alignment explanation
Indices: 1408911--1408953 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1408901 CAATTAGACA
*
1408911 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATAGGTACCCCCTGG
*
1408932 GGGGGAATATGTACCCCCTGG
1 GGGGGAATAGGTACCCCCTGG
1408953 G
1 G
1408954 CAATCTGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.26, G:0.42, T:0.16
Consensus pattern (21 bp):
GGGGGAATAGGTACCCCCTGG
Found at i:1411726 original size:21 final size:21
Alignment explanation
Indices: 1411689--1411764 Score: 102
Period size: 20 Copynumber: 3.7 Consensus size: 21
1411679 CCGTTAGACA
*
1411689 GGGGGAATCGGTA-CCCCTGG
1 GGGGGAATCTGTACCCCCTGG
* *
1411709 GGGGGTATCTGTTCCCCCT-G
1 GGGGGAATCTGTACCCCCTGG
*
1411729 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
1411750 GGGGGAATCTGTACC
1 GGGGGAATCTGTACC
1411765 ACTGGGCAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
20 27 0.57
21 20 0.43
ACGTcount: A:0.13, C:0.26, G:0.41, T:0.20
Consensus pattern (21 bp):
GGGGGAATCTGTACCCCCTGG
Found at i:1411770 original size:40 final size:40
Alignment explanation
Indices: 1411689--1411770 Score: 121
Period size: 40 Copynumber: 2.0 Consensus size: 40
1411679 CCGTTAGACA
* * *
1411689 GGGGGAATCGGTACCCCTGGGGGGGTATCTGTTCCCCCTG
1 GGGGGAATCGGTACCCCTGGGGGGGAATCTGTTACCACTG
1411729 GGGGGAATCGGTACCCCCTGGGGGGGAATCTG-TACCACTG
1 GGGGGAATCGGTA-CCCCTGGGGGGGAATCTGTTACCACTG
1411769 GG
1 GG
1411771 CAATCTGATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 21 0.55
41 17 0.45
ACGTcount: A:0.13, C:0.26, G:0.41, T:0.20
Consensus pattern (40 bp):
GGGGGAATCGGTACCCCTGGGGGGGAATCTGTTACCACTG
Found at i:1423173 original size:20 final size:21
Alignment explanation
Indices: 1423150--1423190 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1423140 TATTATATAT
**
1423150 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
1423170 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
1423191 TAAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:1424592 original size:3 final size:3
Alignment explanation
Indices: 1424584--1424664 Score: 137
Period size: 3 Copynumber: 27.3 Consensus size: 3
1424574 TTAATATATT
*
1424584 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1424631 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1424665 GATGTGGGTA
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
2 2 0.03
3 71 0.97
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1425543 original size:113 final size:113
Alignment explanation
Indices: 1424989--1425526 Score: 959
Period size: 113 Copynumber: 4.8 Consensus size: 113
1424979 AGAATTATGC
* * * * *
1424989 AAAAAGTTGAACAAGTTCTTCTTATTATGAACTTATTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * *
1425054 TATGAACTTTCTCCGGAAAAGATAATCCATCAATTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
*
1425102 AAAAGGTTGAACAAATTCTTCTAATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1425167 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
1425215 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
1425280 TATGAACTTTCTCTGGAAAAGCTGATCCCTCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
1425328 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
1425393 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGAT
66 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
1425441 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1425506 TATGAACTTTCTCTGGAAAAG
66 TATGAACTTTCTCTGGAAAAG
1425527 CTAATCTTTC
Statistics
Matches: 411, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 411 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
Found at i:1426482 original size:83 final size:82
Alignment explanation
Indices: 1426277--1426664 Score: 695
Period size: 83 Copynumber: 4.7 Consensus size: 82
1426267 TAGTTCTTAC
* * *
1426277 CAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTTAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAA
1426342 TGATTGTTCTGTCCAAT
66 TGATTGTTCTGTCCAAT
1426359 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAA
*
1426424 TGTTTGATTCTGTCCAAT
66 TGATTG-TTCTGTCCAAT
1426442 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAA
*
1426507 TGCTTGATTCTGTCCAAT
66 TGATTG-TTCTGTCCAAT
*
1426525 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAA
1426590 TGATTGTTCTGTCCAAT
66 TGATTGTTCTGTCCAAT
*
1426607 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCTA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTA
1426665 TTTAATGTTT
Statistics
Matches: 297, Mismatches: 8, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
82 135 0.45
83 162 0.55
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (82 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAA
TGATTGTTCTGTCCAAT
Found at i:1426602 original size:165 final size:165
Alignment explanation
Indices: 1426277--1426664 Score: 697
Period size: 165 Copynumber: 2.4 Consensus size: 165
1426267 TAGTTCTTAC
* * *
1426277 CAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTTAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAA
1426342 TGATTGTTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAAT
66 TGATTGTTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAAT
*
1426407 TCATCTTCTAAACTCAATGTTTGATTCTGTCCAAT
131 TCATCTTCTAAACTCAATGATTGATTCTGTCCAAT
1426442 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAA
*
1426507 TGCTTGATTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAA
66 TGATTG-TTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAA
*
1426572 TTCATCTTCTAAATTCAATGATTG-TTCTGTCCAAT
130 TTCATCTTCTAAACTCAATGATTGATTCTGTCCAAT
*
1426607 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCTA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTA
1426665 TTTAATGTTT
Statistics
Matches: 215, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
165 135 0.63
166 80 0.37
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (165 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAA
TGATTGTTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAAT
TCATCTTCTAAACTCAATGATTGATTCTGTCCAAT
Found at i:1427459 original size:18 final size:19
Alignment explanation
Indices: 1427424--1427460 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1427414 TTCATAGAAG
1427424 AATAAATTGAATTTTCAAA
1 AATAAATTGAATTTTCAAA
1427443 AATAAATTGAA-TTTCAAA
1 AATAAATTGAATTTTCAAA
1427461 TAAAATGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (19 bp):
AATAAATTGAATTTTCAAA
Found at i:1427463 original size:16 final size:18
Alignment explanation
Indices: 1427424--1427469 Score: 60
Period size: 16 Copynumber: 2.6 Consensus size: 18
1427414 TTCATAGAAG
1427424 AATAAATTGAATTTTCAAA
1 AATAAATTGAATTTTC-AA
1427443 AATAAATTGAA-TTTC-A
1 AATAAATTGAATTTTCAA
*
1427459 AATAAAATGAA
1 AATAAATTGAA
1427470 CTTGAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 11 0.42
18 4 0.15
19 11 0.42
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (18 bp):
AATAAATTGAATTTTCAA
Done.