Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_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: 6984689
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 29
Found at i:1992405 original size:69 final size:69
Alignment explanation
Indices: 1992294--1992425 Score: 196
Period size: 69 Copynumber: 1.9 Consensus size: 69
1992284 TCTGATCTTG
*
1992294 CTTCACTACTCTCCGTGAAGGCTGGATCGAATCACTTCATTACTC-TTACGTGAAGGTTGGATTA
1 CTTCACTACTCTCCGTGAAGGCTAGATCGAATCACTTCATTACTCTTTA-GTGAAGGTTGGATTA
1992358 AATTA
65 AATTA
* * *
1992363 CTTCACTACTCTTCCGTGAAGGCTAGAT-GATTTACTTCATTACTCTTTAGTGAATGTTGGATT
1 CTTCACTACTC-TCCGTGAAGGCTAGATCGAATCACTTCATTACTCTTTAGTGAAGGTTGGATT
1992426 TGTATTACAA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
69 39 0.68
70 18 0.32
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (69 bp):
CTTCACTACTCTCCGTGAAGGCTAGATCGAATCACTTCATTACTCTTTAGTGAAGGTTGGATTAA
ATTA
Found at i:1992485 original size:36 final size:35
Alignment explanation
Indices: 1992445--1992545 Score: 116
Period size: 34 Copynumber: 2.9 Consensus size: 35
1992435 AAATGATTTT
* *
1992445 CTTCACTACTCTTCTGTGAATGTTGAATTTGATTGA
1 CTTCACTACTCTT-TGTGAAAGTTGGATTTGATTGA
* * *
1992481 CTTCACTACTCTTTTGTGAAGGTTGGA--TGGTTTA
1 CTTCACTACTC-TTTGTGAAAGTTGGATTTGATTGA
1992515 CTTCACTACTCTTTCGTGAAAGTTGGATTTG
1 CTTCACTACTCTTT-GTGAAAGTTGGATTTG
1992546 TATTACAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
33 3 0.05
34 27 0.48
36 24 0.43
37 2 0.04
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.44
Consensus pattern (35 bp):
CTTCACTACTCTTTGTGAAAGTTGGATTTGATTGA
Found at i:1992540 original size:118 final size:115
Alignment explanation
Indices: 1992328--1992583 Score: 323
Period size: 118 Copynumber: 2.2 Consensus size: 115
1992318 GATCGAATCA
* *
1992328 CTTCATTACTCTTACGTGAAGGTTGGATTAAATTACTTCACTACTCTTCCGTGAAGGCTAGATGA
1 CTTCACTACTCTT-CGTGAAGGTTGAATTAAATTACTTCACTACTCTTCCGTGAAGGCTAGATGA
* * **
1992393 TTTACTTCATTACTCTTTAGTGAATGTTGGATTTGTATTACAAAATGATTTT
65 TTTACTTCACTACTCTTTAGTGAAAGTTGGATTTGTATTACAAAA-GATTCG
* ** ** * *
1992445 CTTCACTACTCTTCTGTGAATGTTGAATTTGATTGACTTCACTACTCTTTTGTGAAGGTTGGATG
1 CTTCACTACTCTTC-GTGAAGGTTGAATTAAATT-ACTTCACTACTCTTCCGTGAAGGCTAGATG
* *
1992510 GTTTACTTCACTACTCTTTCGTGAAAGTTGGATTTGTATTACAAAAGATTCG
64 ATTTACTTCACTACTCTTTAGTGAAAGTTGGATTTGTATTACAAAAGATTCG
1992562 CTTCCACTACTCTTCCGTGAAG
1 CTT-CACTACTCTT-CGTGAAG
1992584 ATCTTACGAA
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
116 1 0.01
117 34 0.29
118 83 0.70
119 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (115 bp):
CTTCACTACTCTTCGTGAAGGTTGAATTAAATTACTTCACTACTCTTCCGTGAAGGCTAGATGAT
TTACTTCACTACTCTTTAGTGAAAGTTGGATTTGTATTACAAAAGATTCG
Found at i:1992687 original size:20 final size:20
Alignment explanation
Indices: 1992662--1992725 Score: 119
Period size: 20 Copynumber: 3.2 Consensus size: 20
1992652 AAATTACCCG
1992662 AAATGACCCGGAGGTTTTAC
1 AAATGACCCGGAGGTTTTAC
*
1992682 AAATGACCCAGAGGTTTTAC
1 AAATGACCCGGAGGTTTTAC
1992702 AAATGACCCGGAGGTTTTAC
1 AAATGACCCGGAGGTTTTAC
1992722 AAAT
1 AAAT
1992726 TTGTTAGTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (20 bp):
AAATGACCCGGAGGTTTTAC
Found at i:1992938 original size:19 final size:19
Alignment explanation
Indices: 1992903--1992950 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
1992893 TAATTAAATG
*
1992903 TATGAAATGCATTTTCTTT
1 TATGAAATGCATGTTCTTT
1992922 TATGCAAATG-ATGTTC--T
1 TATG-AAATGCATGTTCTTT
1992939 TATG-AATGCATG
1 TATGAAATGCATG
1992951 AATGTCGATC
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 4 0.15
16 3 0.12
17 5 0.19
19 9 0.35
20 5 0.19
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (19 bp):
TATGAAATGCATGTTCTTT
Found at i:1997635 original size:21 final size:21
Alignment explanation
Indices: 1997609--1997653 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1997599 GATTTCTGGG
* *
1997609 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1997630 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1997651 CAA
1 CAA
1997654 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1998078 original size:16 final size:17
Alignment explanation
Indices: 1998044--1998083 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
1998034 TTATATGAAA
*
1998044 TGATATGTGCTTATATG
1 TGATATGTGATTATATG
*
1998061 TGCTATGTGATT-TATG
1 TGATATGTGATTATATG
1998077 TGATATG
1 TGATATG
1998084 CCATATGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.23, C:0.05, G:0.25, T:0.47
Consensus pattern (17 bp):
TGATATGTGATTATATG
Found at i:1998463 original size:2 final size:2
Alignment explanation
Indices: 1998456--1998498 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1998446 CATGAGTTAG
1998456 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
1998498 A
1 A
1998499 GGAATTGTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1998844 original size:30 final size:30
Alignment explanation
Indices: 1998800--1998893 Score: 145
Period size: 30 Copynumber: 3.1 Consensus size: 30
1998790 TCGAGACATA
1998800 TGGACAGTTTACCGAGGATCTTTATGACCTC
1 TGGACAG-TTACCGAGGATCTTTATGACCTC
1998831 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * *
1998861 TGGATAGTTACCG-GGGTCTTTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
1998890 TGGA
1 TGGA
1998894 TAGGTCCTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 18 0.30
30 35 0.58
31 7 0.12
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:2002444 original size:10 final size:10
Alignment explanation
Indices: 2002429--2002456 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
2002419 TAATTTTACC
2002429 TAAATATATA
1 TAAATATATA
2002439 TAAATATATA
1 TAAATATATA
2002449 TAAATATA
1 TAAATATA
2002457 CAGGTATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
TAAATATATA
Found at i:2003651 original size:14 final size:14
Alignment explanation
Indices: 2003614--2003651 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
2003604 TCTTTTCATA
2003614 ATAAT-AATATATT
1 ATAATAAATATATT
2003627 AT-ATAATATATATT
1 ATAATAA-ATATATT
2003641 ATAATAAATAT
1 ATAATAAATAT
2003652 GACACTCGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.09
13 3 0.14
14 13 0.59
15 4 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAATAAATATATT
Found at i:2004566 original size:5 final size:5
Alignment explanation
Indices: 2004556--2004580 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2004546 CATTTAAATA
2004556 ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT
2004581 TGATAGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:2005491 original size:21 final size:22
Alignment explanation
Indices: 2005450--2005503 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
2005440 CTTTTCATTT
*
2005450 AAATCATATTTTTATTGAATAA
1 AAATAATATTTTTATTGAATAA
*
2005472 AAATAATATTTTT-TTTAATAA
1 AAATAATATTTTTATTGAATAA
* *
2005493 ATATATTATTT
1 AAATAATATTT
2005504 CGGGTAGAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
AAATAATATTTTTATTGAATAA
Found at i:2005924 original size:20 final size:20
Alignment explanation
Indices: 2005901--2005952 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2005891 AACGCGATCC
2005901 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
2005921 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
2005941 CCAAAATCGCAA
1 CCAGAATCGCAA
2005953 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:2005969 original size:21 final size:20
Alignment explanation
Indices: 2005942--2006040 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
2005932 AATCAGTTTC
2005942 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
2005963 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
2005984 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
2006004 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
2006025 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
2006041 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:2006069 original size:20 final size:20
Alignment explanation
Indices: 2006007--2006200 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
2005997 CGATTTTCCA
* ** *
2006007 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
2006027 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
2006047 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2006067 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
2006087 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
2006107 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2006127 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
2006147 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
2006167 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
2006188 AAATCGCAACGCG
1 AAATCGCAACGCG
2006201 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:2006091 original size:60 final size:60
Alignment explanation
Indices: 2006007--2006200 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
2005997 CGATTTTCCA
* ** * *
2006007 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
2006067 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
2006127 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
2006188 AAATCGCAACGCG
1 AAATCGCAACGCG
2006201 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:2006620 original size:33 final size:33
Alignment explanation
Indices: 2006581--2006651 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2006571 TTCACTTAGA
*
2006581 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
2006614 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
2006647 TTTCA
1 TTTCA
2006652 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:2006791 original size:14 final size:14
Alignment explanation
Indices: 2006772--2006826 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2006762 AGAATGACTG
2006772 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
2006786 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
2006805 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
2006819 TCGCAACG
1 TCGCAACG
2006827 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:2006839 original size:33 final size:33
Alignment explanation
Indices: 2006772--2006842 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2006762 AGAATGACTG
***
2006772 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
2006805 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
2006838 TCGCA
1 TCGCA
2006843 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:2006860 original size:19 final size:19
Alignment explanation
Indices: 2006838--2006935 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
2006828 GAAACCAAAA
*
2006838 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2006857 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
2006871 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2006890 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
2006904 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
2006923 TCGCGTTGCGATT
1 TCGCGTTGCGATT
2006936 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2006879 original size:14 final size:14
Alignment explanation
Indices: 2006860--2006949 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
2006850 TTTCATTTCG
2006860 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2006874 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2006893 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2006907 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
2006924 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
2006940 CGTTGCGATT
1 CGTTGCGATT
2006950 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2006885 original size:33 final size:33
Alignment explanation
Indices: 2006843--2006957 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
2006833 CAAAATCGCA
2006843 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
2006876 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
2006909 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
2006942 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
2006958 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:2008960 original size:93 final size:93
Alignment explanation
Indices: 2008648--2009118 Score: 912
Period size: 93 Copynumber: 5.1 Consensus size: 93
2008638 TAGATTGCTT
2008648 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2008713 -TTGTCTTTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2008739 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
2008803 TTTGTCGTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2008831 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2008896 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2008924 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2008989 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2009017 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2009082 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2009110 AGTAAATTT
1 AGTAAATTT
2009119 ATCCATTCAA
Statistics
Matches: 375, Mismatches: 2, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
90 2 0.01
91 77 0.21
92 72 0.19
93 224 0.60
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2009202 original size:19 final size:19
Alignment explanation
Indices: 2009162--2009296 Score: 110
Period size: 19 Copynumber: 7.6 Consensus size: 19
2009152 TAGTTTACTT
* *
2009162 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
2009182 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
2009201 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
2009220 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
2009234 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
2009253 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
**
2009267 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
2009286 TCGCAATGCGA
1 TCGCAACGCGA
2009297 TTTTCATTTC
Statistics
Matches: 94, Mismatches: 11, Indels: 21
0.75 0.09 0.17
Matches are distributed among these distances:
14 19 0.20
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 50 0.53
20 13 0.14
ACGTcount: A:0.45, C:0.27, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:2009241 original size:33 final size:32
Alignment explanation
Indices: 2009198--2009291 Score: 152
Period size: 33 Copynumber: 2.9 Consensus size: 32
2009188 CGCGAAACCA
2009198 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAATGAAAATCGCAACGAC
**
2009230 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAATGAAAATCGCAACGAC
2009263 AAGATCGCAACGCGAAATGAAAATCGCAA
1 AA-ATCGCAACGCGAAATGAAAATCGCAA
2009292 TGCGATTTTC
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
32 2 0.04
33 54 0.96
ACGTcount: A:0.47, C:0.26, G:0.19, T:0.09
Consensus pattern (32 bp):
AAATCGCAACGCGAAATGAAAATCGCAACGAC
Found at i:2009288 original size:52 final size:51
Alignment explanation
Indices: 2009162--2009296 Score: 141
Period size: 52 Copynumber: 2.6 Consensus size: 51
2009152 TAGTTTACTT
*
2009162 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAA-TGAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
2009214 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAATGA-A-AATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
* *
2009267 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAACACGAAATGAAAATCGCAACGCGA
2009297 TTTTCATTTC
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
50 4 0.06
51 6 0.09
52 44 0.66
53 4 0.06
54 7 0.10
55 2 0.03
ACGTcount: A:0.45, C:0.27, G:0.19, T:0.10
Consensus pattern (51 bp):
TCGCAACACGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:2009308 original size:19 final size:19
Alignment explanation
Indices: 2009292--2009420 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
2009282 AAAATCGCAA
2009292 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
2009311 TGCGA--TTC-TTT--CGT
1 TGCGATTTTCATTTCGCGT
* *
2009325 TGCAATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCGT
*
2009344 TGCGA--TTC-TGT--CGT
1 TGCGATTTTCATTTCGCGT
2009358 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
**
2009377 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
* *
2009396 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTTCA-TTTCGCGT
2009416 TGCGA
1 TGCGA
2009421 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 14 0.16
16 11 0.12
17 11 0.12
19 40 0.45
20 12 0.14
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.47
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:2009327 original size:14 final size:14
Alignment explanation
Indices: 2009308--2009364 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
2009298 TTTCATTTCG
2009308 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
*
2009322 CGTTGCAATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
2009339 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
2009355 CGTTGCGATT
1 CGTTGCGATT
2009365 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 15 0.43
16 7 0.20
17 8 0.23
19 5 0.14
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:2009338 original size:33 final size:33
Alignment explanation
Indices: 2009296--2009383 Score: 149
Period size: 33 Copynumber: 2.7 Consensus size: 33
2009286 TCGCAATGCG
*
2009296 ATTTTCATTTCGCGTTGCGATTCTTTCGTTGCA
1 ATTTTCATTTCGCGTTGCGATTCTGTCGTTGCA
* *
2009329 ATTTTCATTTCGCATTGCGATTCTGTCGTTGCG
1 ATTTTCATTTCGCGTTGCGATTCTGTCGTTGCA
2009362 ATTTTCATTTCGCGTTGCGATT
1 ATTTTCATTTCGCGTTGCGATT
2009384 TTGGTTTCGC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.12, C:0.20, G:0.19, T:0.48
Consensus pattern (33 bp):
ATTTTCATTTCGCGTTGCGATTCTGTCGTTGCA
Found at i:2011343 original size:14 final size:14
Alignment explanation
Indices: 2011324--2011359 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2011314 ATTGTTTAAT
2011324 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
2011338 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
2011352 TGATTTGT
1 TGATTTGT
2011360 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2011482 original size:19 final size:18
Alignment explanation
Indices: 2011466--2011565 Score: 127
Period size: 19 Copynumber: 5.6 Consensus size: 18
2011456 AAAAATGACT
2011466 ATCGCAATGCGAAATGAA
1 ATCGCAATGCGAAATGAA
2011484 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG-AA
*
2011503 ATCGCAA--CGAGA-G-A
1 ATCGCAATGCGAAATGAA
2011517 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG-AA
*
2011536 ATAGCAATGCGGAAATGAA
1 ATCGCAATGC-GAAATGAA
2011555 ATCGCAATGCG
1 ATCGCAATGCG
2011566 TTTATAATTT
Statistics
Matches: 71, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
14 8 0.11
16 5 0.07
17 5 0.07
18 17 0.24
19 30 0.42
20 6 0.08
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (18 bp):
ATCGCAATGCGAAATGAA
Found at i:2011614 original size:33 final size:33
Alignment explanation
Indices: 2011572--2011899 Score: 208
Period size: 33 Copynumber: 9.5 Consensus size: 33
2011562 TGCGTTTATA
2011572 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
*
2011605 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
*
2011641 -TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
* *
2011676 ATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTA
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
*
2011714 ATTTCGCATTGCGATTATGTCGGTT-CGATTTTC
1 ATTTCGCATTGCGATTATCTC-GTTGCGATTTTC
*
2011747 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATT-T-TC
* * * * *
2011787 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTATCTCGTTGCGATTTTC
* *
2011818 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTT
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
* * *
2011851 ATTTCGCGTTGCGATTTTCAT-GTTGGGATTTTC
1 ATTTCGCATTGCGATTATC-TCGTTGCGATTTTC
*
2011884 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
2011900 GTATTTTCCG
Statistics
Matches: 249, Mismatches: 22, Indels: 48
0.78 0.07 0.15
Matches are distributed among these distances:
31 9 0.04
32 5 0.02
33 124 0.50
34 3 0.01
35 19 0.08
36 20 0.08
37 4 0.02
38 53 0.21
39 3 0.01
40 9 0.04
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (33 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
Found at i:2011618 original size:19 final size:19
Alignment explanation
Indices: 2011594--2011899 Score: 347
Period size: 19 Copynumber: 17.4 Consensus size: 19
2011584 GATTATCTCG
2011594 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2011613 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2011632 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
2011646 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2011665 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2011684 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
2011703 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
2011722 TTGCGA--TT-ATGTCG-G
1 TTGCGATTTTCATTTCGCA
2011737 TT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2011755 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2011774 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
2011788 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2011807 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2011826 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
* *
2011840 TTGCGATTTTTATTTCGCG
1 TTGCGATTTTCATTTCGCA
2011859 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
2011873 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
2011892 TTGCGATT
1 TTGCGATT
2011900 GTATTTTCCG
Statistics
Matches: 247, Mismatches: 15, Indels: 50
0.79 0.05 0.16
Matches are distributed among these distances:
14 32 0.13
15 2 0.01
16 30 0.12
17 31 0.13
18 2 0.01
19 150 0.61
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:2011834 original size:52 final size:52
Alignment explanation
Indices: 2011594--2011871 Score: 343
Period size: 52 Copynumber: 5.2 Consensus size: 52
2011584 GATTATCTCG
*
2011594 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* *
2011646 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* * *
2011703 TTGCGATTTTAATTTCGCATTGCGATTATGTCGGTT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTC-GTTGCGATTTTCATTTCGCA
2011755 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
* *
2011807 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTTATTTCGCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
2011859 TTGCGATTTTCAT
1 TTGCGATTTTCAT
2011872 GTTGGGATTT
Statistics
Matches: 210, Mismatches: 9, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
51 3 0.01
52 167 0.80
53 2 0.01
54 6 0.03
55 8 0.04
57 24 0.11
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:2014215 original size:12 final size:12
Alignment explanation
Indices: 2014198--2014222 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2014188 TCTTCGGGGA
2014198 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2014210 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2014222 C
1 C
2014223 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2015141 original size:20 final size:20
Alignment explanation
Indices: 2015113--2015481 Score: 449
Period size: 20 Copynumber: 18.4 Consensus size: 20
2015103 AAATTTCAGT
* * * *
2015113 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
2015133 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
2015153 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
2015173 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
2015193 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2015213 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
*
2015233 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
2015253 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2015273 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2015293 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
2015313 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
2015333 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2015353 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
2015373 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
2015393 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
2015413 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
2015433 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
2015453 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
2015473 GTTGCGATT
1 GTTGCGATT
2015482 ATGGAAAATC
Statistics
Matches: 307, Mismatches: 34, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
19 5 0.02
20 297 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:2016069 original size:23 final size:23
Alignment explanation
Indices: 2016041--2016104 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
2016031 GTTTACACAT
2016041 ATGTTTATGAATATTAAATGAAC
1 ATGTTTATGAATATTAAATGAAC
* *
2016064 ATGTTTATGAATGTTAAATTAAC
1 ATGTTTATGAATATTAAATGAAC
* *
2016087 ATGTTCATGAATACTAAA
1 ATGTTTATGAATATTAAA
2016105 CAAACAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (23 bp):
ATGTTTATGAATATTAAATGAAC
Found at i:2018067 original size:55 final size:55
Alignment explanation
Indices: 2017936--2018073 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 55
2017926 TAACTATATA
* *
2017936 TAAAATCTAATAAATTAATAATGATTAATTAATAATTTAGTATCTCTCTTATTATTTAT
1 TAAAAACTAATAAATTAAT-A--A-TAATTAATAATTTAATATCTCTCTTATTATTTAT
** *
2017995 TAAAATTTAATAAATTAATAATAATTAGTAATTTAATAT-T-T-TTATTATTTAT
1 TAAAAACTAATAAATTAATAATAATTAATAATTTAATATCTCTCTTATTATTTAT
* *
2018047 TAATAAACTGAT-AATTATTAATTAATT
1 TAA-AAACTAATAAATTAATAA-TAATT
2018074 TTTATAATAA
Statistics
Matches: 70, Mismatches: 7, Indels: 10
0.80 0.08 0.11
Matches are distributed among these distances:
52 22 0.31
53 11 0.16
54 1 0.01
55 16 0.23
56 1 0.01
58 1 0.01
59 18 0.26
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.49
Consensus pattern (55 bp):
TAAAAACTAATAAATTAATAATAATTAATAATTTAATATCTCTCTTATTATTTAT
Found at i:2021415 original size:2 final size:2
Alignment explanation
Indices: 2021410--2021439 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2021400 ACACACACAC
2021410 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2021440 TACAAGGCTA
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2021932 original size:15 final size:15
Alignment explanation
Indices: 2021912--2021992 Score: 103
Period size: 15 Copynumber: 5.5 Consensus size: 15
2021902 TTTCAGAAAA
2021912 TGAATTACTGGAATT
1 TGAATTACTGGAATT
*
2021927 TGAATTACTGAAATT
1 TGAATTACTGGAATT
**
2021942 TGAATTACT-GAAAA
1 TGAATTACTGGAATT
2021956 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
2021971 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
2021985 TGAATTAC
1 TGAATTAC
2021993 ATTTCTGAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
14 23 0.41
15 33 0.59
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.36
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:2021960 original size:29 final size:30
Alignment explanation
Indices: 2021912--2021992 Score: 121
Period size: 29 Copynumber: 2.8 Consensus size: 30
2021902 TTTCAGAAAA
**
2021912 TGAATTACTGGAATTTGAATTACTGAAATT
1 TGAATTACTGGAAAATGAATTACTGAAATT
*
2021942 TGAATTACT-GAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGAAATT
2021971 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
2021993 ATTTCTGAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
28 2 0.04
29 36 0.77
30 9 0.19
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.36
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGAAATT
Found at i:2021970 original size:44 final size:43
Alignment explanation
Indices: 2021907--2021992 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 43
2021897 TGGTTTTTCA
*
2021907 GAAAATGAATTACTGGAATTTGAATTACT-GAAATTTGAATTACT
1 GAAAATGAATTACTGGAATTTGAATT-CTGGAAA-ATGAATTACT
2021951 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
2021993 ATTTCTGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
43 10 0.25
44 30 0.75
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.34
Consensus pattern (43 bp):
GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACT
Found at i:2022024 original size:20 final size:20
Alignment explanation
Indices: 2021975--2022024 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
2021965 GGAATTTGAA
*
2021975 TTCTGGAAAATGAATTACAT
1 TTCTGAAAAATGAATTACAT
2021995 TTCTGAAAAATGAATTACAT
1 TTCTGAAAAATGAATTACAT
2022015 TTCTGAAAAA
1 TTCTGAAAAA
2022025 CATATGGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (20 bp):
TTCTGAAAAATGAATTACAT
Found at i:2022238 original size:19 final size:21
Alignment explanation
Indices: 2022216--2022256 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
2022206 TAATATATTC
2022216 ATTATTAAATA-TAAAA-AAA
1 ATTATTAAATATTAAAATAAA
*
2022235 ATTATTATATATTAAAATAAA
1 ATTATTAAATATTAAAATAAA
2022256 A
1 A
2022257 ATATAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 5 0.26
21 4 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
ATTATTAAATATTAAAATAAA
Found at i:2022240 original size:26 final size:24
Alignment explanation
Indices: 2022189--2022257 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
2022179 TTTACTAAAA
* *
2022189 TATTATTGAAATATAAATAATATAT
1 TATTATT-AAATATAAAAAAAATAT
2022214 TCATTATTAAATATAAAAAAAATTAT
1 T-ATTATTAAATATAAAAAAAA-TAT
2022240 TATATATTAAA-ATAAAAA
1 TAT-TATTAAATATAAAAA
2022258 TATAATATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
25 22 0.56
26 17 0.44
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (24 bp):
TATTATTAAATATAAAAAAAATAT
Found at i:2022265 original size:21 final size:20
Alignment explanation
Indices: 2022227--2022265 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2022217 TTATTAAATA
* *
2022227 TAAAAAAAATTATTATATAT
1 TAAAAAAAAATATAATATAT
2022247 TAAAATAAAAATATAATAT
1 TAAAA-AAAAATATAATAT
2022266 CTTATATTAT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAAAAAAATATAATATAT
Found at i:2022320 original size:25 final size:29
Alignment explanation
Indices: 2022274--2022344 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
2022264 ATCTTATATT
* * *
2022274 ATATTATTATATAAATTGATTATTTTTAT-A
1 ATATTAATAAATAAATT-A-TATTATTATAA
2022304 ATATTAA-AAATAAATTATATTATTATAA
1 ATATTAATAAATAAATTATATTATTATAA
2022332 ATATTAATAAATA
1 ATATTAATAAATA
2022345 TATTTTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 8 0.22
28 9 0.25
29 13 0.36
30 6 0.17
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (29 bp):
ATATTAATAAATAAATTATATTATTATAA
Found at i:2022608 original size:42 final size:42
Alignment explanation
Indices: 2022549--2022665 Score: 207
Period size: 42 Copynumber: 2.8 Consensus size: 42
2022539 AATTACATTT
*
2022549 CGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTTTTC
1 CGGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTC
*
2022591 CGGAAAACGAATTACGTGAAACAAACACGGGAAAATATTTTC
1 CGGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTC
*
2022633 CGGAAAACGAATTACGTAAAACAAACACGGGAA
1 CGGAAAACGAATTACGTGAAACAAACACGGGAA
2022666 TTCGAAGAAA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (42 bp):
CGGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTC
Found at i:2023752 original size:324 final size:324
Alignment explanation
Indices: 2023152--2023770 Score: 963
Period size: 324 Copynumber: 1.9 Consensus size: 324
2023142 CAAAATTATT
*
2023152 TTACGGTATTTGAATAATTTTGTGATATTTTTAACTTATTTATAAATTTTAAAAAAAATACTTAT
1 TTACGGTATTTGAATAATTTTGAGATATTTTTAACTTATTTATAAATTTT-AAAAAAATACTTAT
* * * * * * *
2023217 AAATATCGAATACAATATGTATTGTTATTCATTATAAAACATAACGTTATTTGATCTAATAATTG
65 AAAAACCGAATACAATATATAATATTATTCATTATAAAAAATAACGTTATTAGATCTAATAATTG
** *
2023282 GTCGAGAGGTCAAGGATACTCATAATGTCCCACCTTATGTTTGTTTTAATACTAGCATTTACTTT
130 GTCGAGAGGTCAAGGATACTCATAATGTCCCACCTTATGTGGGTTTTAATACTAACATTTACTTT
* *
2023347 GAAAATGTAATACCTCTCTACTAAATAAAAAAACATAACATTATTATTATTTGAATGTTATAACA
195 GAAAATGTAACACCTCTCTACTAAATAAAAAAACATAACAATATTATTATTTGAATGTTATAACA
*
2023412 ATAATGCACAAACCAAGCAGTTTCATTAGTAAAGGATGTTATTCATTATAAAACAATATATAATG
260 ATAATGCACAAACCAAGCAGTCTCATTAGTAAAGGATGTTATTCATTATAAAACAATATATAATG
* * *
2023477 TTACTGTATTTGAATAATTTTGAGATATTTTTAGCTTATTTATAAATTTT-AAAAAATATTTATA
1 TTACGGTATTTGAATAATTTTGAGATATTTTTAACTTATTTATAAATTTTAAAAAAATACTTATA
*
2023541 AAAACCGAATACAATATATAATATTATTCATTATAAAAAATAA-GATTATTGAGATCTATTAATT
66 AAAACCGAATACAATATATAATATTATTCATTATAAAAAATAACG-TTATT-AGATCTAATAATT
* * * *
2023605 GGTCGAGTGGTCAAGGATAGTCATAATGTCTCACCTTATGTGGGTTTTAATCCTAACATTTACTT
129 GGTCGAGAGGTCAAGGATACTCATAATGTCCCACCTTATGTGGGTTTTAATACTAACATTTACTT
*
2023670 TGAAAATGTAACACCTCTCTACTTAATAAAAAAACATAACAATATTATTATTTGAATGTTATAAC
194 TGAAAATGTAACACCTCTCTACTAAATAAAAAAACATAACAATATTATTATTTGAATGTTATAAC
* * *
2023735 AATAATGTACTAACCAAGTAGTCTCATTAGTAAAGG
259 AATAATGCACAAACCAAGCAGTCTCATTAGTAAAGG
2023771 GTGTGAGCAT
Statistics
Matches: 266, Mismatches: 26, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
322 1 0.00
323 55 0.21
324 163 0.61
325 47 0.18
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (324 bp):
TTACGGTATTTGAATAATTTTGAGATATTTTTAACTTATTTATAAATTTTAAAAAAATACTTATA
AAAACCGAATACAATATATAATATTATTCATTATAAAAAATAACGTTATTAGATCTAATAATTGG
TCGAGAGGTCAAGGATACTCATAATGTCCCACCTTATGTGGGTTTTAATACTAACATTTACTTTG
AAAATGTAACACCTCTCTACTAAATAAAAAAACATAACAATATTATTATTTGAATGTTATAACAA
TAATGCACAAACCAAGCAGTCTCATTAGTAAAGGATGTTATTCATTATAAAACAATATATAATG
Found at i:2024120 original size:34 final size:32
Alignment explanation
Indices: 2024058--2024127 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
2024048 CCTTACAAAC
* *
2024058 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
*
2024090 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
2024124 TCCC
1 TCCC
2024128 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:2024367 original size:20 final size:22
Alignment explanation
Indices: 2024342--2024381 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2024332 AGTCGTATAT
2024342 AGCCG-TTGGGGATG-TTTTAG
1 AGCCGTTTGGGGATGATTTTAG
2024362 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
2024382 TATACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.15, C:0.10, G:0.38, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTAG
Found at i:2024435 original size:21 final size:21
Alignment explanation
Indices: 2024410--2024451 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2024400 CCAGAATGGG
*
2024410 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
2024431 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
2024452 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:2024657 original size:31 final size:31
Alignment explanation
Indices: 2024630--2024719 Score: 141
Period size: 31 Copynumber: 3.0 Consensus size: 31
2024620 AAATTTTGAA
*
2024630 TAAATTCAATT-AAGTCTAAAAA-CATTTT-
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
*
2024658 TTAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
2024689 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
2024720 CCTTAAATTG
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
28 10 0.18
29 10 0.18
30 6 0.11
31 30 0.54
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.36
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:2025026 original size:27 final size:25
Alignment explanation
Indices: 2024969--2025074 Score: 82
Period size: 24 Copynumber: 4.4 Consensus size: 25
2024959 ATTTATTTAC
**
2024969 ATAATAAATATTATTAATTATATTA
1 ATAATAAATATTATTAATTATAAAA
2024994 AT--TAAATATCTATTATATTATAAAA
1 ATAATAAATAT-TATTA-ATTATAAAA
** *
2025019 ATAATAAATGGTATT-ATTATATAA
1 ATAATAAATATTATTAATTATAAAA
* *
2025043 ATAAT-AATACTA-T-ATTATTAAA
1 ATAATAAATATTATTAATTATAAAA
2025065 ATAA-AAATAT
1 ATAATAAATAT
2025075 AACAATAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
22 16 0.24
23 12 0.18
24 18 0.27
25 11 0.17
26 4 0.06
27 5 0.08
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
ATAATAAATATTATTAATTATAAAA
Found at i:2025131 original size:15 final size:14
Alignment explanation
Indices: 2025111--2025151 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
2025101 TGAATATATC
2025111 ATTATAATATTAAGA
1 ATTATAATATTAA-A
2025126 ATTATAATATTAAA
1 ATTATAATATTAAA
* *
2025140 ATAAAAATATTA
1 ATTATAATATTA
2025152 TATTATATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (14 bp):
ATTATAATATTAAA
Found at i:2037487 original size:2 final size:2
Alignment explanation
Indices: 2037480--2037523 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2037470 GAAGAGATTG
2037480 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
2037522 AT
1 AT
2037524 GGAATCCATC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2042710 original size:20 final size:20
Alignment explanation
Indices: 2042685--2042738 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
2042675 ATATGAGCTA
2042685 TGACTTTGCAAAAGGTTGCT
1 TGACTTTGCAAAAGGTTGCT
2042705 TGACTTTGCAAAAGGTTGCT
1 TGACTTTGCAAAAGGTTGCT
2042725 TGACTTTGCAAAAG
1 TGACTTTGCAAAAG
2042739 TGTGCCTTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (20 bp):
TGACTTTGCAAAAGGTTGCT
Found at i:2042826 original size:21 final size:21
Alignment explanation
Indices: 2042784--2042822 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2042774 CATCAAGCCC
*
2042784 TTTATTGAAGCCATGAAATCT
1 TTTATCGAAGCCATGAAATCT
2042805 TTTATCGAAGCCAT-AAAT
1 TTTATCGAAGCCATGAAAT
2042823 TCTTGCAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (21 bp):
TTTATCGAAGCCATGAAATCT
Found at i:2048135 original size:40 final size:40
Alignment explanation
Indices: 2048080--2048309 Score: 145
Period size: 40 Copynumber: 5.7 Consensus size: 40
2048070 CATTAATTAT
** *
2048080 GACTTAGTGTCCTTTAGAGGAAGGAGTAAGATTGTCCTAC
1 GACTTAGCATCCTTTAGAGGAAGGAGTAAGATCGTCCTAC
2048120 GACTTAGCATCCTTTAGAGGAAGGAGTAAG-TCGTCC--C
1 GACTTAGCATCCTTTAGAGGAAGGAGTAAGATCGTCCTAC
* * * **
2048157 TGTATTTAGAATCCTTTAAAAGG-AGGAGCATATCACCTACTGAT--TAC
1 -G-ACTTAGCATCCTTT-AGAGGAAGGAG--TA--AGAT-C-G-TCCTAC
* *
2048204 GACTTAGCACCCTTTAGTGGAAGGAGTAAGATCGTCCTAC
1 GACTTAGCATCCTTTAGAGGAAGGAGTAAGATCGTCCTAC
* * * *
2048244 GACTTAGCATCCTTCAGATGAAGAAG-AATGATCGTCGT-C
1 GACTTAGCATCCTTTAGAGGAAGGAGTAA-GATCGTCCTAC
*
2048283 TGATTTAGCATCCTTTAGAAGG-AGGAG
1 -GACTTAGCATCCTTTAG-AGGAAGGAG
2048310 CGGATCACCC
Statistics
Matches: 147, Mismatches: 24, Indels: 38
0.70 0.11 0.18
Matches are distributed among these distances:
37 1 0.01
38 2 0.01
39 26 0.18
40 84 0.57
41 6 0.04
43 3 0.02
44 4 0.03
45 17 0.12
46 2 0.01
47 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (40 bp):
GACTTAGCATCCTTTAGAGGAAGGAGTAAGATCGTCCTAC
Found at i:2049370 original size:29 final size:30
Alignment explanation
Indices: 2049337--2049404 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
2049327 ACAAGTCTTA
* * *
2049337 GAAAAATTGGG-GACCATTTTGTAAATTTT
1 GAAAAATTGGGAGACCAATTCGTAAATTCT
* *
2049366 GAAAAGTTGGGAGATCAATTCGTAAATTCT
1 GAAAAATTGGGAGACCAATTCGTAAATTCT
*
2049396 GGAAAATTG
1 GAAAAATTG
2049405 ATGGATTGTT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
29 10 0.32
30 21 0.68
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (30 bp):
GAAAAATTGGGAGACCAATTCGTAAATTCT
Found at i:2049553 original size:3 final size:3
Alignment explanation
Indices: 2049538--2049594 Score: 62
Period size: 3 Copynumber: 18.7 Consensus size: 3
2049528 TTTATTTAAA
* * *
2049538 TAT TAT T-T ATAT TAT TAT TAT AAA TAT TAT TAT TTT TAT TAT TAAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
2049584 TAT TAT TAT TA
1 TAT TAT TAT TA
2049595 CAAACAAGCC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 1 0.02
3 40 0.89
4 4 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:2049556 original size:15 final size:16
Alignment explanation
Indices: 2049525--2049590 Score: 68
Period size: 15 Copynumber: 4.3 Consensus size: 16
2049515 TCTTCATTTT
*
2049525 TTATTTAT-TTAAATA
1 TTATTTATATTAATTA
2049540 TTATTTATATT-ATTA
1 TTATTTATATTAATTA
**
2049555 TTATAAATATT-ATTA
1 TTATTTATATTAATTA
2049570 TT-TTTATTATTAATTA
1 TTATTTA-TATTAATTA
2049586 TTATT
1 TTATT
2049591 ATTACAAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
14 2 0.05
15 30 0.71
16 8 0.19
17 2 0.05
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTTATATTAATTA
Found at i:2049570 original size:12 final size:11
Alignment explanation
Indices: 2049529--2049568 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
2049519 CATTTTTTAT
2049529 TTATTTAAATA
1 TTATTTAAATA
*
2049540 TTATTTATATTA
1 TTATTTA-AATA
2049552 TTATTATAAATA
1 TTATT-TAAATA
2049564 TTATT
1 TTATT
2049569 ATTTTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 7 0.28
12 16 0.64
13 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTATTTAAATA
Found at i:2049576 original size:24 final size:23
Alignment explanation
Indices: 2049522--2049593 Score: 85
Period size: 24 Copynumber: 3.1 Consensus size: 23
2049512 TTTTCTTCAT
2049522 TTTTTATTTATTTAAATATTATT-
1 TTTTTA-TTATTTAAATATTATTA
*
2049545 TATATTATTATTATAAATATTATTA
1 T-TTTTATTATT-TAAATATTATTA
*
2049570 TTTTTATTA-TTAATTATTATTA
1 TTTTTATTATTTAAATATTATTA
2049592 TT
1 TT
2049594 ACAAACAAGC
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
22 13 0.30
23 7 0.16
24 22 0.51
25 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTTATTATTTAAATATTATTA
Found at i:2050015 original size:22 final size:19
Alignment explanation
Indices: 2049989--2050038 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 19
2049979 AAAAATATAG
2049989 AACAGAAAAAAGAGAGGCAACC
1 AACAG-AAAAAG-GA-GCAACC
2050011 AACAG-AAAAGGAGCAACC
1 AACAGAAAAAGGAGCAACC
2050029 AACAGCAAAA
1 AACAG-AAAA
2050039 TCAAAGCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 11 0.42
19 2 0.08
20 8 0.31
22 5 0.19
ACGTcount: A:0.60, C:0.20, G:0.20, T:0.00
Consensus pattern (19 bp):
AACAGAAAAAGGAGCAACC
Found at i:2051814 original size:26 final size:27
Alignment explanation
Indices: 2051762--2051819 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
2051752 TAATTCTTTC
*
2051762 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATATTTATATATAC-TATTA
* *
2051790 TTTTCATAATATTTATATGTA-TATTA
1 TTTTCAAAATATTTATATATACTATTA
2051816 TTTT
1 TTTT
2051820 ATTAATGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 9 0.33
28 18 0.67
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATACTATTA
Found at i:2062499 original size:19 final size:18
Alignment explanation
Indices: 2062475--2062549 Score: 89
Period size: 19 Copynumber: 4.1 Consensus size: 18
2062465 TATATGCTTG
2062475 AAGAAAAAAAAGAACAAAA
1 AAGAAAAAAAAGAA-AAAA
* *
2062494 AAGAAAAAAATGAGAAAA
1 AAGAAAAAAAAGAAAAAA
*
2062512 AAGAAAGAAAAATAAAAAA
1 AAGAAA-AAAAAGAAAAAA
*
2062531 AAG-AAAAGAAGAAAAAA
1 AAGAAAAAAAAGAAAAAA
2062548 AA
1 AA
2062550 AGGGGGTCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
17 12 0.25
18 12 0.25
19 24 0.50
ACGTcount: A:0.83, C:0.01, G:0.13, T:0.03
Consensus pattern (18 bp):
AAGAAAAAAAAGAAAAAA
Found at i:2062502 original size:18 final size:18
Alignment explanation
Indices: 2062479--2062551 Score: 78
Period size: 18 Copynumber: 4.0 Consensus size: 18
2062469 TGCTTGAAGA
*
2062479 AAAAAAAGAACAAAAAAG
1 AAAAAAAGAAAAAAAAAG
*
2062497 AAAAAAATG-AGAAAAAAG
1 AAAAAAA-GAAAAAAAAAG
2062515 AAAGAAAA-ATAAAAAAAAG
1 AAA-AAAAGA-AAAAAAAAG
*
2062534 AAAAGAAGAAAAAAAAAG
1 AAAAAAAGAAAAAAAAAG
2062552 GGGGTCAAGA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
18 30 0.64
19 17 0.36
ACGTcount: A:0.82, C:0.01, G:0.14, T:0.03
Consensus pattern (18 bp):
AAAAAAAGAAAAAAAAAG
Found at i:2062522 original size:28 final size:25
Alignment explanation
Indices: 2062480--2062549 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 25
2062470 GCTTGAAGAA
2062480 AAAAAAGAACAAAAAAGAAAAAAATGAG
1 AAAAAAGAA-AAAAAAGAAAAAAA--AG
*
2062508 AAAAAAGAAAGAAAAATAAAAAAAAG
1 AAAAAAGAAA-AAAAAGAAAAAAAAG
2062534 AAAAGAAGAAAAAAAA
1 AAAA-AAGAAAAAAAA
2062550 AGGGGGTCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
26 11 0.28
27 7 0.18
28 21 0.54
ACGTcount: A:0.83, C:0.01, G:0.13, T:0.03
Consensus pattern (25 bp):
AAAAAAGAAAAAAAAGAAAAAAAAG
Found at i:2062550 original size:19 final size:19
Alignment explanation
Indices: 2062475--2062550 Score: 70
Period size: 20 Copynumber: 4.0 Consensus size: 19
2062465 TATATGCTTG
*
2062475 AAGAAA-AAAAAGAACAAAA
1 AAGAAAGAAAAATAA-AAAA
*
2062494 AAG-AA-AAAAATGAGAAAA
1 AAGAAAGAAAAAT-AAAAAA
2062512 AAGAAAGAAAAATAAAAAA
1 AAGAAAGAAAAATAAAAAA
2062531 AAGAAAAGAAGAAA-AAAAAA
1 AAG-AAAGAA-AAATAAAAAA
2062551 GGGGGTCAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
18 14 0.29
19 14 0.29
20 18 0.37
21 3 0.06
ACGTcount: A:0.83, C:0.01, G:0.13, T:0.03
Consensus pattern (19 bp):
AAGAAAGAAAAATAAAAAA
Found at i:2062551 original size:37 final size:37
Alignment explanation
Indices: 2062475--2062549 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
2062465 TATATGCTTG
*
2062475 AAGAAAAAAAAGAACAAAAAAGAAAAAAATGAGAAAA
1 AAGAAAAAAAAGAACAAAAAAGAAAAAAATGAAAAAA
* *
2062512 AAGAAAGAAAAATAA-AAAAAAGAAAAGAA-GAAAAAA
1 AAGAAA-AAAAAGAACAAAAAAGAAAAAAATGAAAAAA
2062548 AA
1 AA
2062550 AGGGGGTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 8 0.24
37 19 0.56
38 7 0.21
ACGTcount: A:0.83, C:0.01, G:0.13, T:0.03
Consensus pattern (37 bp):
AAGAAAAAAAAGAACAAAAAAGAAAAAAATGAAAAAA
Found at i:2063444 original size:115 final size:115
Alignment explanation
Indices: 2063242--2063692 Score: 780
Period size: 115 Copynumber: 3.9 Consensus size: 115
2063232 TACCACGTTA
*
2063242 TCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGG
1 TCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
* *
2063307 TTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATAAATTTGC
66 TTTGATATGAACCCCAAAAACCAATCATTGAATTTGAAAGATAAATTTGC
*
2063357 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
2063422 TTTGATATGAACCCCAAAAACCAATCATTGAATTTGAAAGATAAATTTGC
66 TTTGATATGAACCCCAAAAACCAATCATTGAATTTGAAAGATAAATTTGC
*
2063472 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
*
2063537 TTTGATATGAACCCCAAAAACCAATCATTGAATTTGAAAGATGAATTTGC
66 TTTGATATGAACCCCAAAAACCAATCATTGAATTTGAAAGATAAATTTGC
*
2063587 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
* * * *
2063652 TTCGGTAAGAACCAC-AAAACCAATCATTGGAA-TTGAAAGAT
66 TTTGATATGAACCCCAAAAACCAATCATT-GAATTTGAAAGAT
2063693 GAACTGCATG
Statistics
Matches: 324, Mismatches: 11, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
114 22 0.07
115 302 0.93
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (115 bp):
TCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
TTTGATATGAACCCCAAAAACCAATCATTGAATTTGAAAGATAAATTTGC
Found at i:2064613 original size:113 final size:112
Alignment explanation
Indices: 2064435--2065148 Score: 903
Period size: 113 Copynumber: 6.4 Consensus size: 112
2064425 TTTCAGTTCG
* * *
2064435 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATGATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * * ** *
2064500 AACTTTTTGCTTAAATTTATCAC-TCAGTGGATCAGTAGTACCAGTTAG
66 AACCTTTTGCTTAAATTCATCACTTGA-TGGATCAGT-TTTCCAGAGAA
*
2064548 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTCGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * ** * *
2064613 AACCTTTTGTTTAAATTCATCATTTGATGGATCAACATTGCCAGAAAA
66 AACCTTTTGCTTAAATTCATCACTTGATGGATC-AGTTTTCCAGAGAA
*
2064661 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * *
2064726 AACCTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCTAGAGAA
66 AACCTTTTGCTTAAATTCATCACTTGATGGATC-AGTTTTCCAGAGAA
*
2064774 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAAAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * *
2064839 GACCTTTTG----AATTCATCATTTGATGGATCAATATTGT-CAG-GTAG
66 AACCTTTTGCTTAAATTCATCACTTGATGGATCAGT-TT-TCCAGAG-AA
2064883 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAA-GAAG-A-AA-TTCATAATGAGAAGAATTTG
1 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
* *
2064944 TTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAA
63 TTCAACCTTTTGCTTAAATTCATCACTTGATGGATCAG-TTTTCCAGAGAA
* *
2064995 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCACAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * *
2065060 AA-CTTTTCTCTTGAATTCATTACTTGATGGATCAGCTTTTCCAGAGAA
66 AACCTTTT-GCTTAAATTCATCACTTGATGGATCAG-TTTTCCAGAGAA
*
2065108 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
2065149 TTTATTCAAC
Statistics
Matches: 533, Mismatches: 48, Indels: 40
0.86 0.08 0.06
Matches are distributed among these distances:
108 33 0.06
109 55 0.10
110 7 0.01
111 7 0.01
112 62 0.12
113 366 0.69
114 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (112 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTGCTTAAATTCATCACTTGATGGATCAGTTTTCCAGAGAA
Found at i:2065013 original size:334 final size:335
Alignment explanation
Indices: 2064435--2065148 Score: 1010
Period size: 334 Copynumber: 2.1 Consensus size: 335
2064425 TTTCAGTTCG
* *
2064435 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATGATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAAAAGAACTTGTTC
* * * *
2064500 AACTTTTTGCTTAAATTTATCACTCAGTGGATCAGTAGTACCAGTTAGAGTTCATAATGAGAAGA
66 AACCTTTTG--T-AATTCATCACTCAGTGGATCAATAGTACCAGGTAGAGTTCATAATGAGAAGA
* * *
2064565 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTCGTTCAACCTTTTGTTTAAATT
128 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTCGTTCAACCTTTTGCTCAAATC
*
2064630 CATCATTTGATGGATCAACATTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
193 CATCACTTGATGGATCAACATTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
2064695 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC-AAATCCATCACTTGATGGATC
258 AGAAGAAATTCACAATGAGAAGAACTTGTTCAA-CTTTT-CTCTAAATCCATCACTTGATGGATC
*
2064759 AACTTTTCTAGAGAA
321 AACTTTTCCAGAGAA
* *
2064774 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAAAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAAAAGAACTTGTTC
* ** * **
2064839 GACCTTTTG-AATTCATCA-TTTGATGGATCAATATTGTCAGGTAGAGTTCATAATGAGAAGAAC
66 AACCTTTTGTAATTCATCACTCAG-TGGATCAATAGTACCAGGTAGAGTTCATAATGAGAAGAA-
*
2064902 TCGTCATCTGAAGAA-GAAG-A-AA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAAT
129 -C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTCGTTCAACCTTTTGCTCAAAT
* * * *
2064963 CCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
192 CCATCACTTGATGGATCAACATTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
* * * *
2065028 AAGAAGAAGTTCACAATGAGAAGAACTTGTTCAACTTTTCTCTTGAATTCATTACTTGATGGATC
257 AAGAAGAAATTCACAATGAGAAGAACTTGTTCAACTTTTCTC-TAAATCCATCACTTGATGGATC
*
2065093 AGCTTTTCCAGAGAA
321 AACTTTTCCAGAGAA
2065108 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAA
2065149 TTTATTCAAC
Statistics
Matches: 337, Mismatches: 32, Indels: 17
0.87 0.08 0.04
Matches are distributed among these distances:
332 3 0.01
333 5 0.01
334 199 0.59
335 44 0.13
336 1 0.00
337 5 0.01
338 12 0.04
339 68 0.20
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (335 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAAAAGAACTTGTTC
AACCTTTTGTAATTCATCACTCAGTGGATCAATAGTACCAGGTAGAGTTCATAATGAGAAGAACT
CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTCGTTCAACCTTTTGCTCAAATCCAT
CACTTGATGGATCAACATTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
AGAAATTCACAATGAGAAGAACTTGTTCAACTTTTCTCTAAATCCATCACTTGATGGATCAACTT
TTCCAGAGAA
Found at i:2065316 original size:9 final size:9
Alignment explanation
Indices: 2065284--2065363 Score: 58
Period size: 9 Copynumber: 8.8 Consensus size: 9
2065274 TTTTTTTCTT
*
2065284 TATTTTTTA
1 TATTATTTA
2065293 T-TTATTTAAA
1 TATTATTT--A
2065303 TATTATTTA
1 TATTATTTA
2065312 TATTA-TTA
1 TATTATTTA
**
2065320 T-TATAAATA
1 TAT-TATTTA
2065329 TTATTATTTA
1 -TATTATTTA
*
2065339 TATTATTTT
1 TATTATTTA
*
2065348 TATTATTAA
1 TATTATTTA
2065357 TATTATT
1 TATTATT
2065364 ATTACAAACA
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
7 1 0.02
8 11 0.19
9 31 0.54
10 7 0.12
11 7 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TATTATTTA
Found at i:2065321 original size:27 final size:27
Alignment explanation
Indices: 2065282--2065363 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
2065272 CATTTTTTTC
*
2065282 TTTAT-TTTTTATTTATTTAAATATTA
1 TTTATATTATTATTTATTTAAATATTA
*
2065308 TTTATATTATTA-TTA-TAAATATTATTA
1 TTTATATTATTATTTATTTAA-A-TATTA
*
2065335 TTTATATTATT-TTTATTATTAATATTA
1 TTTATATTATTATTTATT-TAAATATTA
2065362 TT
1 TT
2065364 ATTACAAACA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
25 3 0.07
26 9 0.20
27 31 0.67
28 2 0.04
29 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTATATTATTATTTATTTAAATATTA
Found at i:2065341 original size:12 final size:12
Alignment explanation
Indices: 2065294--2065360 Score: 66
Period size: 12 Copynumber: 5.4 Consensus size: 12
2065284 TATTTTTTAT
*
2065294 TTATTTA-AATA
1 TTATTTATATTA
2065305 TTATTTATATTA
1 TTATTTATATTA
2065317 TTATTATAAATATTA
1 TTATT-T--ATATTA
2065332 TTATTTATATTA
1 TTATTTATATTA
2065344 TT-TTTATTATTA
1 TTATTTA-TATTA
*
2065356 ATATT
1 TTATT
2065361 ATTATTACAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
11 11 0.23
12 22 0.46
13 3 0.06
14 1 0.02
15 11 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTATTTATATTA
Found at i:2065362 original size:12 final size:12
Alignment explanation
Indices: 2065301--2065367 Score: 58
Period size: 12 Copynumber: 6.1 Consensus size: 12
2065291 TATTTATTTA
2065301 AATATTATT-TAT
1 AATATTATTAT-T
* *
2065313 ATTATTATTATA
1 AATATTATTATT
2065325 AATATTATTATT
1 AATATTATTATT
2065337 --TA-TATTATT
1 AATATTATTATT
2065346 --T-TTATTATT
1 AATATTATTATT
2065355 AATATTATTATT
1 AATATTATTATT
2065367 A
1 A
2065368 CAAACAGGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
9 15 0.33
10 2 0.04
11 1 0.02
12 27 0.59
13 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
AATATTATTATT
Found at i:2065365 original size:15 final size:15
Alignment explanation
Indices: 2065303--2065367 Score: 78
Period size: 15 Copynumber: 4.3 Consensus size: 15
2065293 TTTATTTAAA
*
2065303 TATTATTTATATTAT
1 TATTATTAATATTAT
*
2065318 TATTATAAATATTAT
1 TATTATTAATATTAT
* *
2065333 TATT-TATATTATTTT
1 TATTAT-TAATATTAT
2065348 TATTATTAATATTAT
1 TATTATTAATATTAT
2065363 TATTA
1 TATTA
2065368 CAAACAGGCC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
14 1 0.02
15 39 0.95
16 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTATTAATATTAT
Found at i:2065788 original size:22 final size:19
Alignment explanation
Indices: 2065762--2065811 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 19
2065752 AAATATATAG
2065762 AACAGAAAAAAGAGAGGCAACC
1 AACAG-AAAAAG-GA-GCAACC
2065784 AACAG-AAAAGGAGCAACC
1 AACAGAAAAAGGAGCAACC
2065802 AACAGCAAAA
1 AACAG-AAAA
2065812 TCAAAGCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 11 0.42
19 2 0.08
20 8 0.31
22 5 0.19
ACGTcount: A:0.60, C:0.20, G:0.20, T:0.00
Consensus pattern (19 bp):
AACAGAAAAAGGAGCAACC
Found at i:2068612 original size:46 final size:45
Alignment explanation
Indices: 2068474--2068728 Score: 350
Period size: 46 Copynumber: 5.6 Consensus size: 45
2068464 GGTAAGTATG
* *
2068474 AAAATAAGCTTAAGAGCTTATGGAAT-AATGGCAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* *
2068518 AAAATAAGCTTACAAGCTTATGGAATAAATGGTAAATATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* *
2068563 AAAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTATATTGAT
1 AAAATAAGCTTACGAGCTTATGG-AATAAATGGTAAGTATATTGGT
* *
2068609 AAAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTATATTGAT
1 AAAATAAGCTTACGAGCTTATGG-AATAAATGGTAAGTATATTGGT
* * * * *
2068655 AAAATAAACTCACTAGCTTATAGAATAAATGGTAAGTATTTTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* *
2068700 AAAATAAGCTTACAAGCTTATGGGATAAA
1 AAAATAAGCTTACGAGCTTATGGAATAAA
2068729 AGGTGAGAAA
Statistics
Matches: 189, Mismatches: 20, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
44 24 0.13
45 81 0.43
46 84 0.44
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
Found at i:2068614 original size:91 final size:90
Alignment explanation
Indices: 2068474--2068728 Score: 359
Period size: 91 Copynumber: 2.8 Consensus size: 90
2068464 GGTAAGTATG
* *
2068474 AAAATAAGCTTAAGAGCTTATGGAAT-AATGGCAAGTATATTGGTAAAATAAGCTTACAAGCTTA
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACAAGCTTA
*
2068538 TGGAATAAATGGTAAATATATTGGT
66 TGGAATAAATGGTAAATATATTGAT
* * *
2068563 AAAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTATATTGATAAAATAAGCTTACGAGCTT
1 AAAATAAGCTTACGAGCTTATGG-AATAAATGGTAAGTATATTGGTAAAATAAGCTTACAAGCTT
* *
2068628 ATGGTATTAAATGGTAAGTATATTGAT
65 ATGG-AATAAATGGTAAATATATTGAT
* * * * *
2068655 AAAATAAACTCACTAGCTTATAGAATAAATGGTAAGTATTTTGGTAAAATAAGCTTACAAGCTTA
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACAAGCTTA
*
2068720 TGGGATAAA
66 TGGAATAAA
2068729 AGGTGAGAAA
Statistics
Matches: 145, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
89 22 0.15
90 6 0.04
91 79 0.54
92 38 0.26
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (90 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACAAGCTTA
TGGAATAAATGGTAAATATATTGAT
Found at i:2068699 original size:137 final size:135
Alignment explanation
Indices: 2068474--2068722 Score: 381
Period size: 137 Copynumber: 1.8 Consensus size: 135
2068464 GGTAAGTATG
* * *
2068474 AAAATAAGCTTAAGAGCTTATGGAATAATGGCAAGTATATTGGTAAAATAAGCTTACAAGCTTAT
1 AAAATAAGCTTAAGAGCTTATGGAATAATGGCAAGTATATTGATAAAATAAACTCACAAGCTTAT
* *
2068539 GGAATAAATGGTAAATATATTGGTAAAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTATA
66 AGAATAAATGGTAAATATATTGGTAAAATAAGCTTACAAGCTTATGGTATTAAATGGTAAGTATA
2068604 TTGAT
131 TTGAT
* * * *
2068609 AAAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTATATTGATAAAATAAACTCACTAGCTT
1 AAAATAAGCTTAAGAGCTTATGG-AAT-AATGGCAAGTATATTGATAAAATAAACTCACAAGCTT
* *
2068674 ATAGAATAAATGGTAAGTATTTTGGTAAAATAAGCTTACAAGCTTATGG
64 ATAGAATAAATGGTAAATATATTGGTAAAATAAGCTTACAAGCTTATGG
2068723 GATAAAAGGT
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
135 22 0.22
136 2 0.02
137 77 0.76
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (135 bp):
AAAATAAGCTTAAGAGCTTATGGAATAATGGCAAGTATATTGATAAAATAAACTCACAAGCTTAT
AGAATAAATGGTAAATATATTGGTAAAATAAGCTTACAAGCTTATGGTATTAAATGGTAAGTATA
TTGAT
Found at i:2068973 original size:20 final size:20
Alignment explanation
Indices: 2068945--2068992 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
2068935 CAAAGCAACA
*
2068945 TCAACATCTAAGAGTGTATT
1 TCAATATCTAAGAGTGTATT
2068965 TCAATATCTAAGAGTGTATT
1 TCAATATCTAAGAGTGTATT
2068985 TCAATATC
1 TCAATATC
2068993 AGTAAGACAT
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:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (20 bp):
TCAATATCTAAGAGTGTATT
Found at i:2069522 original size:40 final size:40
Alignment explanation
Indices: 2069467--2069665 Score: 147
Period size: 40 Copynumber: 4.9 Consensus size: 40
2069457 ACACACCAAT
*
2069467 TACGACTTAGCATCCTTCAGAGAAAGGAGTAAGATCGCCC
1 TACGACTTAGCATCCTTCAGAGAAAGGAGTAAGATCACCC
* * * *
2069507 TACGACTTAGCATCCTTCAAAGGAATGAGTAAGATCATCC
1 TACGACTTAGCATCCTTCAGAGAAAGGAGTAAGATCACCC
* **
2069547 T-CAGATTTAGCATCCTTCAGA-AAGAGGAG-CGGATCACCCACC
1 TAC-GACTTAGCATCCTTCAGAGAA-AGGAGTAAGATCA--C-CC
* * * *
2069589 GATTACGAATTAGCATCCTTTAGAGGAAA-GAGTAAGATTATCC
1 ---TACGACTTAGCATCCTTCAGA-GAAAGGAGTAAGATCACCC
* * *
2069632 TATGACTTAGC-TCCTTCAAAGGAAGGAGTAAGAT
1 TACGACTTAGCATCCTTCAGAGAAAGGAGTAAGAT
2069666 TGTCCCCATA
Statistics
Matches: 123, Mismatches: 23, Indels: 27
0.71 0.13 0.16
Matches are distributed among these distances:
38 3 0.02
39 23 0.19
40 65 0.53
42 2 0.02
43 2 0.02
45 20 0.16
46 6 0.05
47 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (40 bp):
TACGACTTAGCATCCTTCAGAGAAAGGAGTAAGATCACCC
Found at i:2069693 original size:124 final size:125
Alignment explanation
Indices: 2069460--2069718 Score: 342
Period size: 124 Copynumber: 2.1 Consensus size: 125
2069450 GGGTGTTACA
* * *
2069460 CACCAATTACGACTTAGCATCCTTCAGAGAAAGGAGTAAGATCGCCCTACGACTTAGCATCCTTC
1 CACCGATTACGAATTAGCATCCTTCAGAGAAAGGAGTAAGATCACCCTACGACTTAGCATCCTTC
* * * * *
2069525 AAAGGAATGAGTAAGATCATCCTCAGATTTAGCATCCTTCAGAAAGAGGAGCGGATCACC
66 AAAGGAAGGAGTAAGATCATCCCCAGATTTAACATCCTTAAGAAAGAAGAGCGGATCACC
* * * *
2069585 CACCGATTACGAATTAGCATCCTTTAGAGGAAA-GAGTAAGATTATCCTATGACTTAGC-TCCTT
1 CACCGATTACGAATTAGCATCCTTCAGA-GAAAGGAGTAAGATCACCCTACGACTTAGCATCCTT
** * *
2069648 CAAAGGAAGGAGTAAGATTGTCCCCATATTTAACATCCTTAAGAAATAAGAGCGGATCACC
65 CAAAGGAAGGAGTAAGATCATCCCCAGATTTAACATCCTTAAGAAAGAAGAGCGGATCACC
*
2069709 CACTGATTAC
1 CACCGATTAC
2069719 AACTTAACGT
Statistics
Matches: 116, Mismatches: 17, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
124 66 0.57
125 46 0.40
126 4 0.03
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (125 bp):
CACCGATTACGAATTAGCATCCTTCAGAGAAAGGAGTAAGATCACCCTACGACTTAGCATCCTTC
AAAGGAAGGAGTAAGATCATCCCCAGATTTAACATCCTTAAGAAAGAAGAGCGGATCACC
Found at i:2070323 original size:10 final size:9
Alignment explanation
Indices: 2070307--2070358 Score: 59
Period size: 10 Copynumber: 5.3 Consensus size: 9
2070297 TACTATATGA
2070307 ATTATTATT
1 ATTATTATT
*
2070316 ACTTATTACT
1 A-TTATTATT
2070326 ATTATATATT
1 ATTAT-TATT
2070336 ATTATATAGTT
1 ATTAT-TA-TT
2070347 ATTATTATT
1 ATTATTATT
2070356 ATT
1 ATT
2070359 TGTACCATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
9 10 0.26
10 21 0.55
11 7 0.18
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (9 bp):
ATTATTATT
Found at i:2070375 original size:3 final size:3
Alignment explanation
Indices: 2070265--2070358 Score: 64
Period size: 3 Copynumber: 29.7 Consensus size: 3
2070255 TAATTCGTGC
* ** * * *
2070265 TTA TTA TGA TTA TTA TTA GCA TTA TTA TTA GGTA CTA -TA TGAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA T-TA TTA
*
2070311 TTA TTA CTTA TTA CTA TTA TATA TTA TTA TATA GTTA TTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TTA T-TA TTA TTA T-TA -TTA TTA TTA TTA TT
2070359 TGTACCATTT
Statistics
Matches: 72, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
2 2 0.03
3 55 0.76
4 14 0.19
5 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.55
Consensus pattern (3 bp):
TTA
Found at i:2074891 original size:14 final size:14
Alignment explanation
Indices: 2074874--2074910 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2074864 GAATCTGACG
2074874 AGTTGACTCAGACA
1 AGTTGACTCAGACA
* *
2074888 AGTTGACTCAGGCG
1 AGTTGACTCAGACA
2074902 AGTTGACTC
1 AGTTGACTC
2074911 GGTTCATACC
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:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (14 bp):
AGTTGACTCAGACA
Found at i:2082600 original size:22 final size:22
Alignment explanation
Indices: 2082574--2082617 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2082564 GTACGAGTTG
*
2082574 GGGATTAGGGATTTGAGAATTT
1 GGGATTAGGGAATTGAGAATTT
*
2082596 GGGATTTGGGAATTGAGAATTT
1 GGGATTAGGGAATTGAGAATTT
2082618 TGGGCATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.36, T:0.36
Consensus pattern (22 bp):
GGGATTAGGGAATTGAGAATTT
Found at i:2084970 original size:25 final size:25
Alignment explanation
Indices: 2084937--2085000 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
2084927 ATCATTAATC
*
2084937 ATATA-ATATATATAC-CTGCATATA
1 ATATATATATATATACAC-GCAAATA
* *
2084961 ATATCTATATACATACACGCAAATA
1 ATATATATATATATACACGCAAATA
2084986 ATATATATATATATA
1 ATATATATATATATA
2085001 TATATATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
24 4 0.12
25 28 0.85
26 1 0.03
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.36
Consensus pattern (25 bp):
ATATATATATATATACACGCAAATA
Found at i:2089861 original size:90 final size:90
Alignment explanation
Indices: 2089744--2089921 Score: 266
Period size: 90 Copynumber: 2.0 Consensus size: 90
2089734 TAATCCCGAA
* * * * * * *
2089744 TATTTAATTTTAATTAATTAAATATAGATATAATTAATTTGAAATAATAAAATCCGTGATATGAT
1 TATTAAATTCTAATTAATTAAACATAGATATAATTAATTTGAAATAATAAAAACCCTAATATGAC
*
2089809 TAGGGTAATTTGGATATAAAAGGAT
66 TAGGGTAACTTGGATATAAAAGGAT
*
2089834 TATTAAATTCTAATTAATTAAACATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
1 TATTAAATTCTAATTAATTAAACATAGATATAATTAATTTGAAATAATAAAAACCCTAATATGAC
*
2089899 TAGGGTAACTTGGCTATAAAAGG
66 TAGGGTAACTTGGATATAAAAGG
2089922 GTGTTTTACG
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 78 1.00
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (90 bp):
TATTAAATTCTAATTAATTAAACATAGATATAATTAATTTGAAATAATAAAAACCCTAATATGAC
TAGGGTAACTTGGATATAAAAGGAT
Found at i:2091824 original size:15 final size:15
Alignment explanation
Indices: 2091804--2091835 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2091794 TCCACACTCA
2091804 AGCTAGCTTGGAAGG
1 AGCTAGCTTGGAAGG
2091819 AGCTAGCTTGGAAGG
1 AGCTAGCTTGGAAGG
2091834 AG
1 AG
2091836 ACACATGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.41, T:0.19
Consensus pattern (15 bp):
AGCTAGCTTGGAAGG
Found at i:2092848 original size:90 final size:90
Alignment explanation
Indices: 2092694--2092879 Score: 257
Period size: 90 Copynumber: 2.1 Consensus size: 90
2092684 GATTGACTTG
* * *
2092694 CTTCACTACTCTTCAAGAATATCATATATAAAACAAAGGGCATATGCTCCACTACTCTTTAGGGA
1 CTTCACGACTCTTCAAGAAGATCATAAATAAAACAAAGGGCATATGCTCCACTACTCTTTAGGGA
*
2092759 GATTAGATATAGAAACTTTGATTCA
66 GAATAGATATAGAAACTTTGATTCA
* * * * *
2092784 TTTCACGACTCTTCAAGAAGATCA-AAACTGAAATAAAGGGGATATGCTCCACTATTCTTTAGGG
1 CTTCACGACTCTTCAAGAAGATCATAAA-TAAAACAAAGGGCATATGCTCCACTACTCTTTAGGG
* *
2092848 AGAATAGATTTGGAAACTTTGATTCA
65 AGAATAGATATAGAAACTTTGATTCA
2092874 CTTCAC
1 CTTCAC
2092880 TTCTTTTAAG
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
89 2 0.02
90 81 0.98
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (90 bp):
CTTCACGACTCTTCAAGAAGATCATAAATAAAACAAAGGGCATATGCTCCACTACTCTTTAGGGA
GAATAGATATAGAAACTTTGATTCA
Found at i:2094565 original size:3 final size:3
Alignment explanation
Indices: 2094557--2094582 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2094547 TTCATTCTCT
2094557 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
2094583 TCTTTTTCTT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2099690 original size:17 final size:17
Alignment explanation
Indices: 2099670--2099728 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
2099660 TTTAGGGAAG
2099670 TAGTTCATTTATGCATC
1 TAGTTCATTTATGCATC
* *
2099687 TAGTT-ATTTAAT-AAAC
1 TAGTTCATTT-ATGCATC
* * *
2099703 TACTTCATTCATGCATT
1 TAGTTCATTTATGCATC
2099720 TAGTTCATT
1 TAGTTCATT
2099729 GAATAAAGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.47
Consensus pattern (17 bp):
TAGTTCATTTATGCATC
Found at i:2099742 original size:18 final size:18
Alignment explanation
Indices: 2099719--2099764 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
2099709 ATTCATGCAT
2099719 TTAGTTCATTGAATAAAG
1 TTAGTTCATTGAATAAAG
*
2099737 TTAGTTCATTGAATAATG
1 TTAGTTCATTGAATAAAG
*
2099755 TTATTTCATT
1 TTAGTTCATT
2099765 AATCAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.48
Consensus pattern (18 bp):
TTAGTTCATTGAATAAAG
Found at i:2112861 original size:17 final size:17
Alignment explanation
Indices: 2112824--2112866 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
2112814 AATGTTTGTT
* * *
2112824 TCTCGAACGAGAGTTTT
1 TCTCGAAAGAGAATTTC
2112841 TCTCGAAAGAGAATTTC
1 TCTCGAAAGAGAATTTC
2112858 TCTC-AAAGA
1 TCTCGAAAGA
2112867 AAAGGAAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (17 bp):
TCTCGAAAGAGAATTTC
Found at i:2114558 original size:540 final size:542
Alignment explanation
Indices: 2113559--2114620 Score: 1675
Period size: 540 Copynumber: 2.0 Consensus size: 542
2113549 TCATAGCGAG
*
2113559 AATCTTTATTTCAATGATGCAATCAAAGAATTTGGTTATATCAGAAATGAAGATTAGCCTTGTTT
1 AATCTTCATTTCAATGATGCAATCAAAGAATTTGGTTATATCAGAAATGAAGATTAGCCTTGTTT
* * * * * *
2113624 TTATATAAGGCTAGTGAGAGCATTGTTTCTTTCCTAATCTTGTATGTAGACGACATACTCATCAT
66 TTATAGAAGGCCAGTGAGAGCATTGTTTCTCTCCTAATATTGTATATAGACGACATACTCATAAT
* *
2113689 AGGAAATGATATACATACTTTATAGTCTGTTAAGACTTGGTTAGGTAGTTGTTTTTCTATGAAAG
131 AGGAAATGATATACATACTTTACAGTCTATTAAGACTTGGTTAGGTAGTTGTTTTTCTATGAAAG
*
2113754 ATTTGGGTGAGACAACGTATATCTTAGGAGTTAAGATCTATAGAGATAGATCAAGATGACTTCTA
196 ATTTGGGTGAGACAACGTATATCTTAGGAGTTAAGATCTATAGAGATAGATCAAGACGACTTCTA
* * *
2113819 GGTCTGATTCAAAGTACATATATAGACAAAGTGCTGAAAATGTTCAGTATGGAAGAATCCGATAA
261 GGTCTGAGTCAAAGTACATATATAGACAAAGTGCTGAAAACGTTCAGTATGGAAGAATCCGAGAA
* * *
2113884 AGGATTTTTGCCTAAGAGACATGGCATTTCAGTTTCGAAGAAAATATGTCCTTCAACTCCACAAG
326 AGGATTTTTGCCTAAGAGACATGACATTTCACTTTCGAAGAAAATATGTCATTCAACTCCACAAG
* * * *
2113949 AAAGAGAACGGATGTATAAGATTCCATATGCTTCGGCTATTGGTTCTATTATGTATGCCATGGTA
391 AAAGAGAACGGATGAATAAGATTCCATATGCTTCAGCTATTGGTTCTATCATGTATGCCATGATA
* * * *
2114014 TGTACTCGATCAGATGTATCATATGCTTTAAGCATGAC-ACGTCTTTATCAAGCAAACCCTGGTG
456 TGTACTCAACCAGATATATCATATGCTTTAAGCATGACGA-GTCGTTATCAAGCAAACCCTGGTG
2114078 AAAAGCAAGCTTCTCGAAGATGT
520 AAAAGCAAGCTTCTCGAAGATGT
* *
2114101 AATCTTCATTTCAATGATGCAATCAAAGAATTTGGTTTTATCAGAAATGAATATTAGCC-T-TTT
1 AATCTTCATTTCAATGATGCAATCAAAGAATTTGGTTATATCAGAAATGAAGATTAGCCTTGTTT
*
2114164 TTATAAGAAGGCCAGT-AGGAGCATTGTTTCTCTCCTAATATTTTATATAGACGACATACTCATA
66 TTAT-AGAAGGCCAGTGA-GAGCATTGTTTCTCTCCTAATATTGTATATAGACGACATACTCATA
*
2114228 ATAGGAAATGATATACCTACTTTACAGTCTATTAAGAC-TGGTTAGGTAGTTGTTTTTCTATGAA
129 ATAGGAAATGATATACATACTTTACAGTCTATTAAGACTTGGTTAGGTAGTTGTTTTTCTATGAA
* **
2114292 AGATTTGGGTGAGATAGTGTATATCTTAGGAGTTAAGATCTATAGAGATAGATCAAGACGACTTC
194 AGATTTGGGTGAGACAACGTATATCTTAGGAGTTAAGATCTATAGAGATAGATCAAGACGACTTC
* *
2114357 TAGGTCTGAGTCAAAGTACATATATATACAAAGTGCTGAAAACGTTCTGTATGGAAGAATCCGAG
259 TAGGTCTGAGTCAAAGTACATATATAGACAAAGTGCTGAAAACGTTCAGTATGGAAGAATCCGAG
* * * * * * * *
2114422 AAAGGATTTTTTCCTATGAGATATGACATTTCTCTTTCGAAGGAAATGTGTCATTCAACTCTATA
324 AAAGGATTTTTGCCTAAGAGACATGACATTTCACTTTCGAAGAAAATATGTCATTCAACTCCACA
*
2114487 AGAAAGAGAACGGATGAATAAGATTCTATATGCTTCAGCTATTGGTTCTATCATGTATGCCATGA
389 AGAAAGAGAACGGATGAATAAGATTCCATATGCTTCAGCTATTGGTTCTATCATGTATGCCATGA
*
2114552 TATGTACTCAACCAGATATATCATATGCTTTAAGCGTGACGAGTCGTTATCAAGCAAACCCTGGT
454 TATGTACTCAACCAGATATATCATATGCTTTAAGCATGACGAGTCGTTATCAAGCAAACCCTGGT
2114617 GAAA
519 GAAA
2114621 CTCACTGGGT
Statistics
Matches: 474, Mismatches: 43, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
540 331 0.70
541 87 0.18
542 56 0.12
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (542 bp):
AATCTTCATTTCAATGATGCAATCAAAGAATTTGGTTATATCAGAAATGAAGATTAGCCTTGTTT
TTATAGAAGGCCAGTGAGAGCATTGTTTCTCTCCTAATATTGTATATAGACGACATACTCATAAT
AGGAAATGATATACATACTTTACAGTCTATTAAGACTTGGTTAGGTAGTTGTTTTTCTATGAAAG
ATTTGGGTGAGACAACGTATATCTTAGGAGTTAAGATCTATAGAGATAGATCAAGACGACTTCTA
GGTCTGAGTCAAAGTACATATATAGACAAAGTGCTGAAAACGTTCAGTATGGAAGAATCCGAGAA
AGGATTTTTGCCTAAGAGACATGACATTTCACTTTCGAAGAAAATATGTCATTCAACTCCACAAG
AAAGAGAACGGATGAATAAGATTCCATATGCTTCAGCTATTGGTTCTATCATGTATGCCATGATA
TGTACTCAACCAGATATATCATATGCTTTAAGCATGACGAGTCGTTATCAAGCAAACCCTGGTGA
AAAGCAAGCTTCTCGAAGATGT
Found at i:2119466 original size:18 final size:18
Alignment explanation
Indices: 2119443--2119520 Score: 58
Period size: 18 Copynumber: 4.6 Consensus size: 18
2119433 TAAATTATAC
2119443 AAAATAAAATGTGAAATG
1 AAAATAAAATGTGAAATG
* * *
2119461 AAAATAAACTATAAAATG
1 AAAATAAAATGTGAAATG
* * *
2119479 CAAATAAAA-CT--CA--
1 AAAATAAAATGTGAAATG
2119492 AAAATAAAATGTGAAATG
1 AAAATAAAATGTGAAATG
*
2119510 TAAATAAAATG
1 AAAATAAAATG
2119521 CAAATGTATG
Statistics
Matches: 44, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
13 8 0.18
14 1 0.02
15 1 0.02
16 1 0.02
17 1 0.02
18 32 0.73
ACGTcount: A:0.63, C:0.05, G:0.10, T:0.22
Consensus pattern (18 bp):
AAAATAAAATGTGAAATG
Found at i:2119527 original size:17 final size:18
Alignment explanation
Indices: 2119493--2119528 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2119483 TAAAACTCAA
*
2119493 AAATAAAATGTGAAATGT
1 AAATAAAATGTCAAATGT
2119511 AAATAAAATG-CAAATGT
1 AAATAAAATGTCAAATGT
2119528 A
1 A
2119529 TGCCAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.58, C:0.03, G:0.14, T:0.25
Consensus pattern (18 bp):
AAATAAAATGTCAAATGT
Found at i:2119707 original size:22 final size:23
Alignment explanation
Indices: 2119681--2119724 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
2119671 CTTTAAGGAC
2119681 AAATGTAATTTTT-AAAGTTATA
1 AAATGTAATTTTTAAAAGTTATA
2119703 AAATGTAATTTTTAAAAGTTAT
1 AAATGTAATTTTTAAAAGTTAT
2119725 GTATTTTGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (23 bp):
AAATGTAATTTTTAAAAGTTATA
Found at i:2120637 original size:12 final size:12
Alignment explanation
Indices: 2120621--2120652 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
2120611 TGATGTTGGA
2120621 GCTTGAATTCAT
1 GCTTGAATTCAT
*
2120633 TCTTGAATTCAT
1 GCTTGAATTCAT
2120645 GCTTGAAT
1 GCTTGAAT
2120653 CAAGTTGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.44
Consensus pattern (12 bp):
GCTTGAATTCAT
Found at i:2121723 original size:24 final size:25
Alignment explanation
Indices: 2121680--2121732 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
2121670 GCATATATGC
*
2121680 ACTCCTGTATTAGTATCATT-TTGT
1 ACTCCTGTATTAGTATCATTCATGT
*
2121704 ACTCCTGTGTTTAGTA-CATTCATGT
1 ACTCCTGT-ATTAGTATCATTCATGT
2121729 ACTC
1 ACTC
2121733 TTGGCACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (25 bp):
ACTCCTGTATTAGTATCATTCATGT
Found at i:2121729 original size:25 final size:24
Alignment explanation
Indices: 2121675--2121732 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
2121665 TTACTGCATA
*
2121675 TATGCACTCCTGTATTAGTATCAT
1 TATGTACTCCTGTATTAGTATCAT
* *
2121699 TTTGTACTCCTGTGTTTAGTA-CAT
1 TATGTACTCCTGT-ATTAGTATCAT
2121723 TCATGTACTC
1 T-ATGTACTC
2121733 TTGGCACTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.45
Consensus pattern (24 bp):
TATGTACTCCTGTATTAGTATCAT
Found at i:2122590 original size:32 final size:32
Alignment explanation
Indices: 2122554--2122654 Score: 91
Period size: 32 Copynumber: 3.2 Consensus size: 32
2122544 TTTTAGTATT
2122554 TAATTTTAAATTGCCTTTATTTTAAAGAAACA
1 TAATTTTAAATTGCCTTTATTTTAAAGAAACA
** ** * * ****
2122586 TAATTTT--AGCGATTTTCTATTAAA-ATGTT
1 TAATTTTAAATTGCCTTTATTTTAAAGAAACA
2122615 TAATTTTAAATTGCCTTTATTTTAAAGAAACA
1 TAATTTTAAATTGCCTTTATTTTAAAGAAACA
2122647 TAATTTTA
1 TAATTTTA
2122655 GCGATTTTCT
Statistics
Matches: 46, Mismatches: 20, Indels: 6
0.64 0.28 0.08
Matches are distributed among these distances:
29 8 0.17
30 11 0.24
31 11 0.24
32 16 0.35
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.48
Consensus pattern (32 bp):
TAATTTTAAATTGCCTTTATTTTAAAGAAACA
Found at i:2122627 original size:61 final size:61
Alignment explanation
Indices: 2122552--2122676 Score: 250
Period size: 61 Copynumber: 2.0 Consensus size: 61
2122542 AGTTTTAGTA
2122552 TTTAATTTTAAATTGCCTTTATTTTAAAGAAACATAATTTTAGCGATTTTCTATTAAAATG
1 TTTAATTTTAAATTGCCTTTATTTTAAAGAAACATAATTTTAGCGATTTTCTATTAAAATG
2122613 TTTAATTTTAAATTGCCTTTATTTTAAAGAAACATAATTTTAGCGATTTTCTATTAAAATG
1 TTTAATTTTAAATTGCCTTTATTTTAAAGAAACATAATTTTAGCGATTTTCTATTAAAATG
2122674 TTT
1 TTT
2122677 TACAAGTGTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.49
Consensus pattern (61 bp):
TTTAATTTTAAATTGCCTTTATTTTAAAGAAACATAATTTTAGCGATTTTCTATTAAAATG
Found at i:2125364 original size:19 final size:19
Alignment explanation
Indices: 2125340--2125382 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
2125330 ATAAAAAATG
*
2125340 GTTCAAATAGTAATTTACT
1 GTTCAAATAGTAAATTACT
2125359 GTTCAAATAGTAAATTACT
1 GTTCAAATAGTAAATTACT
*
2125378 ATTCA
1 GTTCA
2125383 TAAAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (19 bp):
GTTCAAATAGTAAATTACT
Found at i:2125480 original size:29 final size:31
Alignment explanation
Indices: 2125446--2125505 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
2125436 AAATTTTGAA
* *
2125446 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTAAATTCAAGTCCAAAAACCATTTTG
2125475 TAAATTAAATTCAAGTCCAAAAACCATTTTG
1 TAAATTAAATTCAAGTCCAAAAACCATTTTG
2125506 CCTTAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 10 0.37
30 10 0.37
31 7 0.26
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTAAATTCAAGTCCAAAAACCATTTTG
Found at i:2125596 original size:22 final size:22
Alignment explanation
Indices: 2125532--2125599 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 22
2125522 CGAAACATAG
2125532 TTCAACAACTATATATATATATATA
1 TTCAA-AA-TATA-ATATATATATA
* * * *
2125557 TT-AAAAAAT-TTATTTATATT
1 TTCAAAATATAATATATATATA
2125577 TTCAAAATATAATATATATATA
1 TTCAAAATATAATATATATATA
2125599 T
1 T
2125600 ATATATTTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 7
0.69 0.17 0.15
Matches are distributed among these distances:
20 10 0.30
21 6 0.18
22 11 0.33
23 2 0.06
24 2 0.06
25 2 0.06
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (22 bp):
TTCAAAATATAATATATATATA
Found at i:2126067 original size:43 final size:43
Alignment explanation
Indices: 2125815--2126224 Score: 258
Period size: 43 Copynumber: 9.7 Consensus size: 43
2125805 TTCAAATCAT
* * * * * *
2125815 TCCCCTTTGTGGGTTAAGCCA-ATGAAATGTTATTCGGATGAC
1 TCCCCTTCGCGGGTTAAGCCAGGTGAAATATTCTTCAGATGAC
* * * ** * *
2125857 TTCCCTTCGCGGGTTAAACTAGGTGAAACGTTCTTCATACGAC
1 TCCCCTTCGCGGGTTAAGCCAGGTGAAATATTCTTCAGATGAC
** ** * * * * * **
2125900 AACCCTTTACGGATTAAACAAGGTAAAATGTTCTTTGGATGAC
1 TCCCCTTCGCGGGTTAAGCCAGGTGAAATATTCTTCAGATGAC
* ** ** *
2125943 TCCCCTTCGTGGGTTAAGTTAGGTGAAAGGTTCTTTAGATGAC
1 TCCCCTTCGCGGGTTAAGCCAGGTGAAATATTCTTCAGATGAC
* * *
2125986 TCCCTTTCGC----AAAGCTAGGTGAAATATTCTTCAGATGAC
1 TCCCCTTCGCGGGTTAAGCCAGGTGAAATATTCTTCAGATGAC
* * * * * *
2126025 TCCTCTTCGTGGGTTTAGCCAGGTGAAATGTTCCTCACATGAC
1 TCCCCTTCGCGGGTTAAGCCAGGTGAAATATTCTTCAGATGAC
* ** * ** *
2126068 TCCCTTTCGCAAGTTAAACCAAATGAAATATTCCTCAGATGAC
1 TCCCCTTCGCGGGTTAAGCCAGGTGAAATATTCTTCAGATGAC
*** * *
2126111 TCCCCTTTATGGGTTAAGGCAGGTGAAATATTCTTC-GAATGAG
1 TCCCCTTCGCGGGTTAAGCCAGGTGAAATATTCTTCAG-ATGAC
* *
2126154 TCCCCTTCGCGGGTTAAGCTAGGTGAAAT-GTCTTCAGATGAC
1 TCCCCTTCGCGGGTTAAGCCAGGTGAAATATTCTTCAGATGAC
* * *
2126196 TCCCCTTTGCGGGTTAAGTCAGATGAAAT
1 TCCCCTTCGCGGGTTAAGCCAGGTGAAAT
2126225 GCTCTCGGCT
Statistics
Matches: 276, Mismatches: 85, Indels: 14
0.74 0.23 0.04
Matches are distributed among these distances:
39 31 0.11
42 51 0.18
43 194 0.70
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (43 bp):
TCCCCTTCGCGGGTTAAGCCAGGTGAAATATTCTTCAGATGAC
Found at i:2128898 original size:20 final size:20
Alignment explanation
Indices: 2128873--2128911 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2128863 GATGTTGAAG
*
2128873 GAAGAAGAAA-AAGATGGAGA
1 GAAGAA-AAACAAGAAGGAGA
2128893 GAAGAAAAACAAGAAGGAG
1 GAAGAAAAACAAGAAGGAG
2128912 GAGGTAGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.62, C:0.03, G:0.33, T:0.03
Consensus pattern (20 bp):
GAAGAAAAACAAGAAGGAGA
Found at i:2135892 original size:12 final size:12
Alignment explanation
Indices: 2135875--2135900 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2135865 GGGGGTGCTT
2135875 TGATTTTTCAAA
1 TGATTTTTCAAA
2135887 TGATTTTTCAAA
1 TGATTTTTCAAA
2135899 TG
1 TG
2135901 GAAAATTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.50
Consensus pattern (12 bp):
TGATTTTTCAAA
Found at i:2147785 original size:21 final size:21
Alignment explanation
Indices: 2147761--2147819 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
2147751 CCCTTGCTAG
2147761 GTATCGATACTCCTTCAACGT
1 GTATCGATACTCCTTCAACGT
* * *
2147782 GTATCGATACCCTCTTTGAATGT
1 GTATCGATA--CTCCTTCAACGT
*
2147805 GTATCGATACCCCTT
1 GTATCGATACTCCTT
2147820 TAAGGGTACC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 13 0.42
23 18 0.58
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (21 bp):
GTATCGATACTCCTTCAACGT
Found at i:2150113 original size:13 final size:14
Alignment explanation
Indices: 2150082--2150115 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
2150072 AAAGGGAAGT
2150082 ATTTTCAAAAATTG
1 ATTTTCAAAAATTG
2150096 A-TTTCAAAAA-TG
1 ATTTTCAAAAATTG
2150108 ATTTTCAA
1 ATTTTCAA
2150116 TAATAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 15 0.79
14 1 0.05
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (14 bp):
ATTTTCAAAAATTG
Found at i:2154795 original size:46 final size:46
Alignment explanation
Indices: 2154745--2155276 Score: 632
Period size: 46 Copynumber: 11.6 Consensus size: 46
2154735 TTTATGCCAT
* ** * *
2154745 TAATGCACCGTTATACATTTTTGTTTATGGCATCCATTCATGCCGA
1 TAATGCACCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
* * *
2154791 TAATGCACCGTTATACTTTTTCATTTGTGACATCCTTTCATGCCGA
1 TAATGCACCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
** * * * *
2154837 TAATGCACCGTTATGCATTTTTGTTTATCGCATACTTTCATGCTGA
1 TAATGCACCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
* **
2154883 TAATGCACCGTTATGCATTTTCATTTGTGGCATCATTTCATGCTTA
1 TAATGCACCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
* * * * *
2154929 TAATGCACCATTATGCATTTTTATTTATGTCATCCTTTCATGTCGA
1 TAATGCACCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
* * ** * *
2154975 TAATGCATCGTTTTATACTTTCATTTCTGGCATCCTTTCATGCCGA
1 TAATGCACCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
* ** * * **
2155021 TAAGGCACTATTATGCATTTTCGTTTGTGGCATCCTTTTATGTTGA
1 TAATGCACCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
* * *
2155067 TAATGCACCTTTATGCATTTTCATTTGTGGCATCCTTCCATGCCAA
1 TAATGCACCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
* * *
2155113 TAATGCATCGTTATGCATTTTCATTTATGACATCCTTTCATGCCGA
1 TAATGCACCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
* *
2155159 TAATGCACCATTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGA
1 TAATGCACCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
* * * *
2155205 TAATGCACCGTTATGCATTTTCATTTCTGGTATCCTTTCTTGCTGA
1 TAATGCACCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
*
2155251 TAATGAACCGTTATGCATTTTCATTT
1 TAATGCACCGTTATGCATTTTCATTT
2155277 ATTCATTCAT
Statistics
Matches: 406, Mismatches: 80, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 406 1.00
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (46 bp):
TAATGCACCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
Found at i:2155801 original size:18 final size:19
Alignment explanation
Indices: 2155759--2155806 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
2155749 GGAATCCATG
2155759 GTATCGATACCTTCTTATTA
1 GTATCGATACC-TCTTATTA
2155779 GTATCGATACC-C-TATTCA
1 GTATCGATACCTCTTATT-A
*
2155797 GTATCAATAC
1 GTATCGATAC
2155807 TAATTGCATC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 4 0.15
18 11 0.42
20 11 0.42
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (19 bp):
GTATCGATACCTCTTATTA
Found at i:2157676 original size:27 final size:27
Alignment explanation
Indices: 2157618--2157669 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
2157608 TAATGGAAAT
* *
2157618 AATTAAAATAAATTAAGGACTTAATTA
1 AATTAAAATAAATAAAGGACTCAATTA
2157645 AATTAAAATAAA-AAAGGAC-CAATTA
1 AATTAAAATAAATAAAGGACTCAATTA
2157670 TAAATTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.22
26 6 0.26
27 12 0.52
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.27
Consensus pattern (27 bp):
AATTAAAATAAATAAAGGACTCAATTA
Found at i:2161089 original size:16 final size:16
Alignment explanation
Indices: 2161031--2161107 Score: 57
Period size: 16 Copynumber: 4.6 Consensus size: 16
2161021 TTTGACTGGT
*
2161031 TATAA-ATATATAATA
1 TATAATATAAATAATA
*
2161046 TATTACACTATAATATAACA
1 TA-TA-A-TATAA-ATAATA
*
2161066 TAATAATATTAATAATA
1 T-ATAATATAAATAATA
*
2161083 TATAATATAAATATTA
1 TATAATATAAATAATA
*
2161099 TATACTATA
1 TATAATATA
2161108 CTATACTATA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
15 2 0.04
16 23 0.47
17 7 0.14
18 4 0.08
19 4 0.08
20 8 0.16
21 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (16 bp):
TATAATATAAATAATA
Done.