Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_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: 4652821
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 23
Found at i:2327588 original size:33 final size:33
Alignment explanation
Indices: 2327551--2327658 Score: 207
Period size: 33 Copynumber: 3.3 Consensus size: 33
2327541 AAAAATGACT
2327551 ATCGCAACGAGAGAATCGCAACGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAACGCGAAATGAAA
2327584 ATCGCAACGAGAGAATCGCAACGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAACGCGAAATGAAA
*
2327617 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAACGCGAAATGAAA
2327650 ATCGCAACG
1 ATCGCAACG
2327659 CGATTATAGT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 74 1.00
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCGCAACGCGAAATGAAA
Found at i:2327696 original size:20 final size:20
Alignment explanation
Indices: 2327667--2327720 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
2327657 CGCGATTATA
2327667 GTTTCGCGTTGCGATTTTTG
1 GTTTCGCGTTGCGATTTTTG
* *
2327687 GTTTCTCGTTGCGA-TTTTC
1 GTTTCGCGTTGCGATTTTTG
*
2327706 ATTTCGCGTTGCGAT
1 GTTTCGCGTTGCGAT
2327721 AGTCATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.07, C:0.19, G:0.26, T:0.48
Consensus pattern (20 bp):
GTTTCGCGTTGCGATTTTTG
Found at i:2327757 original size:20 final size:20
Alignment explanation
Indices: 2327666--2327760 Score: 84
Period size: 20 Copynumber: 4.8 Consensus size: 20
2327656 ACGCGATTAT
*
2327666 AGTTTCGCGTTGCGATTTTT
1 AGTTTCGCGTTGCGATTTTA
* * *
2327686 GGTTTCTCGTTGCGATTTTC
1 AGTTTCGCGTTGCGATTTTA
* *
2327706 A-TTTCGCGTTGCGATAGTCA
1 AGTTTCGCGTTGCGAT-TTTA
** *
2327726 TTTTTCACGTTGCGATTTTA
1 AGTTTCGCGTTGCGATTTTA
*
2327746 AGTTTCGTGTTGCGA
1 AGTTTCGCGTTGCGA
2327761 AAGTAAACTA
Statistics
Matches: 57, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
19 13 0.23
20 31 0.54
21 13 0.23
ACGTcount: A:0.13, C:0.17, G:0.24, T:0.46
Consensus pattern (20 bp):
AGTTTCGCGTTGCGATTTTA
Found at i:2327957 original size:94 final size:93
Alignment explanation
Indices: 2327811--2328096 Score: 482
Period size: 94 Copynumber: 3.1 Consensus size: 93
2327801 ATGGATTATA
* * *
2327811 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTTAGAGTATTAAAGAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
*
2327876 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAATAAAT
2327904 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
2327969 TTAGCAGAATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAATAAAT
* * *
2327998 TTACTTCAACCAAAAGACAAAACAAAAGACAAATACAAACTTCACAATGTTAAAGAATAAACAGT
1 TTACTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
2328063 TTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAATAAAT
2328092 TTACT
1 TTACT
2328097 AAGCAATCTA
Statistics
Matches: 183, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
93 23 0.13
94 160 0.87
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (93 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAATAAAT
Found at i:2328025 original size:12 final size:13
Alignment explanation
Indices: 2328008--2328036 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2327998 TTACTTCAAC
2328008 CAAAAGACAAA-A
1 CAAAAGACAAATA
2328020 CAAAAGACAAATA
1 CAAAAGACAAATA
2328033 CAAA
1 CAAA
2328037 CTTCACAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.72, C:0.17, G:0.07, T:0.03
Consensus pattern (13 bp):
CAAAAGACAAATA
Found at i:2329811 original size:20 final size:19
Alignment explanation
Indices: 2329766--2329868 Score: 73
Period size: 20 Copynumber: 5.8 Consensus size: 19
2329756 TCTTTTGGTT
*
2329766 GAAATGAAAATCGCATCGA
1 GAAATGAAAATCGCAACGA
*
2329785 GAGAATGAAAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
2329806 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
2329825 G--A-G--AATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
2329839 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
2329853 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2329869 TGCGATTTTG
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
14 24 0.34
16 2 0.03
17 2 0.03
19 11 0.16
20 29 0.41
21 2 0.03
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:2329834 original size:14 final size:14
Alignment explanation
Indices: 2329815--2329851 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
2329805 GGAAATGACT
2329815 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
2329829 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
2329843 ATCGCAACG
1 ATCGCAACG
2329852 CGAAATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.41, C:0.24, G:0.27, T:0.08
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:2329906 original size:19 final size:19
Alignment explanation
Indices: 2329869--2329969 Score: 70
Period size: 20 Copynumber: 5.5 Consensus size: 19
2329859 AAAATCGCAA
** *
2329869 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTTGCGT
2329888 TGCGATTTTCATTTTGCGT
1 TGCGATTTTCATTTTGCGT
*
2329907 TGCGA--TTC--TCT-CGT
1 TGCGATTTTCATTTTGCGT
** *
2329921 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCATTTT-GCGT
2329941 TGCGATTTTCATTTT-CATGT
1 TGCGATTTTCATTTTGC--GT
2329961 TGCGATTTT
1 TGCGATTTT
2329970 ATGTTTAGAA
Statistics
Matches: 64, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
14 8 0.12
15 2 0.03
16 2 0.03
17 3 0.05
18 2 0.03
19 21 0.33
20 26 0.41
ACGTcount: A:0.11, C:0.17, G:0.23, T:0.50
Consensus pattern (19 bp):
TGCGATTTTCATTTTGCGT
Found at i:2329967 original size:20 final size:20
Alignment explanation
Indices: 2329919--2329969 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
2329909 CGATTCTCTC
** *
2329919 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCAT
2329939 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
2329959 GTTGCGATTTT
1 GTTGCGATTTT
2329970 ATGTTTAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.14, C:0.14, G:0.22, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:2330572 original size:41 final size:40
Alignment explanation
Indices: 2330500--2330596 Score: 140
Period size: 41 Copynumber: 2.4 Consensus size: 40
2330490 GCGCTATGTA
**
2330500 AATCGCATTGCGATAGTCATATTCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTTCATATTCGCATTGCGATTTACGT
* *
2330540 ATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTTCAT-ATTCGCATTGCGATTTACGT
*
2330581 AATCGCGTTGCGATTT
1 AATCGCATTGCGATTT
2330597 ACGTAATTGC
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
40 16 0.32
41 34 0.68
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.38
Consensus pattern (40 bp):
AATCGCATTGCGATTTTCATATTCGCATTGCGATTTACGT
Found at i:2330597 original size:20 final size:20
Alignment explanation
Indices: 2330500--2330603 Score: 120
Period size: 20 Copynumber: 5.2 Consensus size: 20
2330490 GCGCTATGTA
* *
2330500 AATCGCATTGCGATAGT-CAT
1 AATCGCATTGCGAT-TTACGT
*
2330520 ATTCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
* * *
2330540 ATTCGCATTGCGATTTTCCT
1 AATCGCATTGCGATTTACGT
2330560 AATTCGCATTGCGATTTACGT
1 AA-TCGCATTGCGATTTACGT
*
2330581 AATCGCGTTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
2330601 AAT
1 AAT
2330604 TGCAAAGCGA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
19 1 0.01
20 54 0.74
21 18 0.25
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (20 bp):
AATCGCATTGCGATTTACGT
Found at i:2330613 original size:20 final size:21
Alignment explanation
Indices: 2330520--2330604 Score: 129
Period size: 20 Copynumber: 4.1 Consensus size: 21
2330510 CGATAGTCAT
2330520 ATTCGCATTGCGATTTACGT-
1 ATTCGCATTGCGATTTACGTA
* *
2330540 ATTCGCATTGCGATTTTCCTA
1 ATTCGCATTGCGATTTACGTA
2330561 ATTCGCATTGCGATTTACGTA
1 ATTCGCATTGCGATTTACGTA
*
2330582 A-TCGCGTTGCGATTTACGTA
1 ATTCGCATTGCGATTTACGTA
2330602 ATT
1 ATT
2330605 GCAAAGCGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
20 37 0.64
21 21 0.36
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (21 bp):
ATTCGCATTGCGATTTACGTA
Found at i:2331369 original size:21 final size:20
Alignment explanation
Indices: 2331308--2331383 Score: 93
Period size: 20 Copynumber: 3.8 Consensus size: 20
2331298 TTCTAAACGT
2331308 AAAATCGCAAC-ATGAAAATG
1 AAAATCGCAACGA-GAAAATG
2331328 AAAATCGCAAC-ACGAAAATG
1 AAAATCGCAACGA-GAAAATG
**
2331348 ACTATCGCAACGAGATAAATG
1 AAAATCGCAACGAGA-AAATG
2331369 AAAATCGCAACGAGA
1 AAAATCGCAACGAGA
2331384 GAATCACAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
20 30 0.61
21 19 0.39
ACGTcount: A:0.51, C:0.18, G:0.17, T:0.13
Consensus pattern (20 bp):
AAAATCGCAACGAGAAAATG
Found at i:2331401 original size:33 final size:33
Alignment explanation
Indices: 2331364--2331443 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
2331354 GCAACGAGAT
*
2331364 AAATGAAAATCGCAACGAGAGAATCACAACGCG
1 AAATGAAAATCGCAACGAGAGAATCACAACGCA
* *
2331397 AAATGAAAATCGCAACGAGATAATCGCAACGCA
1 AAATGAAAATCGCAACGAGAGAATCACAACGCA
**
2331430 AAACCAAAATCGCA
1 AAATGAAAATCGCA
2331444 TTGCGATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.50, C:0.23, G:0.17, T:0.10
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCACAACGCA
Found at i:2333318 original size:82 final size:82
Alignment explanation
Indices: 2333181--2333337 Score: 260
Period size: 82 Copynumber: 1.9 Consensus size: 82
2333171 TAGATTGCTT
* *
2333181 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTACCAATACTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
2333246 ATTTGTCTTTTGGTTGA
66 ATTTATCTTTTGGTTGA
* * *
2333263 AGTAAATTTATTCGGTTGCTATCGATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTACCAATACTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2333328 ATTTATCTTT
66 ATTTATCTTT
2333338 GTTTTATCTT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 69 1.00
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (82 bp):
AGTAAATTTATTCGGTTGCTACCAATACTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTATCTTTTGGTTGA
Found at i:2333416 original size:94 final size:93
Alignment explanation
Indices: 2333251--2333454 Score: 327
Period size: 94 Copynumber: 2.2 Consensus size: 93
2333241 TTAGTATTTG
* *
2333251 TCTTTTGGTTGAAGTAAATTTATTCGGTTGCTATCGATTCTGCTAAACTGTGTATTCTTTAACAC
1 TCTTTTGGTTGAAGTAAATTTATTCGGTTGCTACCAATTCTGCTAAACTGTGTATTCTTTAACAC
*
2333316 TGTGAAGTTAGTATTTATCTTTGTTTTA
66 TCTGAAGTTAGTATTTATCTTTGTTTTA
* * *
2333344 TCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATA
1 TCTTTTGGTTG-AAGTAAATTTATTCGGTTGCTACCAATTCTGCTAAACTGTGTATTCTTTAACA
* *
2333409 CTCTGAAGTTAGTATTTGTCTTTGTTTTG
65 CTCTGAAGTTAGTATTTATCTTTGTTTTA
2333438 TCTTTTGGTTGAAGTAA
1 TCTTTTGGTTGAAGTAA
2333455 TACAATCCAT
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
93 17 0.17
94 85 0.83
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.48
Consensus pattern (93 bp):
TCTTTTGGTTGAAGTAAATTTATTCGGTTGCTACCAATTCTGCTAAACTGTGTATTCTTTAACAC
TCTGAAGTTAGTATTTATCTTTGTTTTA
Found at i:2333560 original size:19 final size:19
Alignment explanation
Indices: 2333521--2333645 Score: 90
Period size: 19 Copynumber: 6.9 Consensus size: 19
2333511 CACGAAACTT
*
2333521 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAAC--GCAAAATG
**
2333542 ACTATCGCAACGCAAAATG
1 AAAATCGCAACGCAAAATG
2333561 AAAATCGCAACG----A-G
1 AAAATCGCAACGCAAAATG
* *
2333575 AGAATCGCAACGCGAAATG
1 AAAATCGCAACGCAAAATG
2333594 AAAATCGCAACG----A-G
1 AAAATCGCAACGCAAAATG
* *
2333608 AGAATCGCAACGCGAAATG
1 AAAATCGCAACGCAAAATG
2333627 AAAATCGCAACGACAAAAT
1 AAAATCGCAACG-CAAAAT
2333646 CGCAACGCGA
Statistics
Matches: 83, Mismatches: 10, Indels: 23
0.72 0.09 0.20
Matches are distributed among these distances:
14 24 0.29
15 2 0.02
18 2 0.02
19 41 0.49
20 5 0.06
21 9 0.11
ACGTcount: A:0.48, C:0.21, G:0.20, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCAAAATG
Found at i:2333580 original size:14 final size:14
Alignment explanation
Indices: 2333563--2333619 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2333553 GCAAAATGAA
2333563 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
2333577 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2333596 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2333610 AATCGCAACG
1 AATCGCAACG
2333620 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2333582 original size:33 final size:33
Alignment explanation
Indices: 2333545--2333675 Score: 199
Period size: 33 Copynumber: 3.9 Consensus size: 33
2333535 AAAAATGACT
*
2333545 ATCGCAACGCAAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
2333578 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
2333611 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
** *
2333644 ATCGCAACGCGAAACCAAAAATCGCAGCGAGA
1 ATCGCAACGCGAAA-TGAAAATCGCAACGAGA
2333676 AACTATAATC
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
33 77 0.86
34 13 0.14
ACGTcount: A:0.47, C:0.24, G:0.21, T:0.08
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:2333677 original size:20 final size:20
Alignment explanation
Indices: 2333641--2333678 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2333631 TCGCAACGAC
*
2333641 AAAATCGCAACGCGAAACCA
1 AAAATCGCAACGAGAAACCA
*
2333661 AAAATCGCAGCGAGAAAC
1 AAAATCGCAACGAGAAAC
2333679 TATAATCGCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.26, G:0.18, T:0.05
Consensus pattern (20 bp):
AAAATCGCAACGAGAAACCA
Found at i:2333706 original size:19 final size:19
Alignment explanation
Indices: 2333684--2333804 Score: 82
Period size: 19 Copynumber: 6.8 Consensus size: 19
2333674 GAAACTATAA
2333684 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
2333703 TCGCATTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
2333717 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
2333736 TCACGCTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
2333750 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
2333769 TCGCGTTGCGATAGTCATTTT
1 TCGCGTTGCGATTTTCA--TT
*
2333790 TCACGTTGCGATTTT
1 TCGCGTTGCGATTTT
2333805 AAGTTCCATA
Statistics
Matches: 77, Mismatches: 13, Indels: 22
0.69 0.12 0.20
Matches are distributed among these distances:
14 18 0.23
16 6 0.08
17 6 0.08
19 33 0.43
21 14 0.18
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2333729 original size:33 final size:33
Alignment explanation
Indices: 2333687--2333780 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
2333677 ACTATAATCG
*
2333687 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
* *
2333720 CGTTGCGATTTTCATTTCACGCTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
2333753 CGTTGCGATTTTCATTTCGCGTTGCGAT
1 CGTTGCGATTTTCATTTCGCGTTGCGAT
2333781 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:2334281 original size:42 final size:42
Alignment explanation
Indices: 2334230--2334323 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
2334220 CCACTCCTAT
* * *
2334230 CATTGAAGAGGCCCCTATCATTCCTCG-AGA-GTCCCTTCCCAC
1 CATTCAAGAGGCCACTATCA-TCATCGAAGAGGTCCC-TCCCAC
* * *
2334272 CGTTCAAGAGGCCACTGTCATCATTGAAGAGGTCCCTCCCAC
1 CATTCAAGAGGCCACTATCATCATCGAAGAGGTCCCTCCCAC
2334314 CATTCAAGAG
1 CATTCAAGAG
2334324 CCCGATTCAC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.09
42 34 0.79
43 5 0.12
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.22
Consensus pattern (42 bp):
CATTCAAGAGGCCACTATCATCATCGAAGAGGTCCCTCCCAC
Found at i:2335673 original size:14 final size:14
Alignment explanation
Indices: 2335654--2335689 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2335644 ATTGTTTAAT
2335654 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
2335668 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
2335682 TGATTTGT
1 TGATTTGT
2335690 TTAATTGATG
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:2335818 original size:19 final size:19
Alignment explanation
Indices: 2335796--2335861 Score: 82
Period size: 19 Copynumber: 3.5 Consensus size: 19
2335786 AAAAATGACT
* *
2335796 ATCGCAATGCTAAATGAAA
1 ATCGCAACGCAAAATGAAA
2335815 ATCGCAACG-AGAAATGAAA
1 ATCGCAACGCA-AAATGAAA
2335834 ATCGCAACGCGAAAAT-AAA
1 ATCGCAACGC-AAAATGAAA
2335853 ATCGCAACG
1 ATCGCAACG
2335862 TGAAAATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
19 37 0.88
20 4 0.10
21 1 0.02
ACGTcount: A:0.48, C:0.20, G:0.18, T:0.14
Consensus pattern (19 bp):
ATCGCAACGCAAAATGAAA
Found at i:2335871 original size:19 final size:20
Alignment explanation
Indices: 2335807--2335868 Score: 92
Period size: 19 Copynumber: 3.2 Consensus size: 20
2335797 TCGCAATGCT
2335807 AAATGAAAATCGCAACGAG-
1 AAATGAAAATCGCAACGAGA
*
2335826 AAATGAAAATCGCAACGCGA
1 AAATGAAAATCGCAACGAGA
*
2335846 AAAT-AAAATCGCAACGTGA
1 AAATGAAAATCGCAACGAGA
2335865 AAAT
1 AAAT
2335869 AAATTCGCGT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 36 0.90
20 4 0.10
ACGTcount: A:0.53, C:0.16, G:0.18, T:0.13
Consensus pattern (20 bp):
AAATGAAAATCGCAACGAGA
Found at i:2335876 original size:19 final size:19
Alignment explanation
Indices: 2335807--2335876 Score: 88
Period size: 19 Copynumber: 3.6 Consensus size: 19
2335797 TCGCAATGCT
2335807 AAATGAAAATCGCAACGAG-
1 AAAT-AAAATCGCAACGAGA
*
2335826 AAATGAAAATCGCAACGCGA
1 AAAT-AAAATCGCAACGAGA
*
2335846 AAATAAAATCGCAACGTGA
1 AAATAAAATCGCAACGAGA
*
2335865 AAATAAATTCGC
1 AAATAAAATCGC
2335877 GTTGCGATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 43 0.91
20 4 0.09
ACGTcount: A:0.51, C:0.17, G:0.17, T:0.14
Consensus pattern (19 bp):
AAATAAAATCGCAACGAGA
Found at i:2335894 original size:19 final size:19
Alignment explanation
Indices: 2335872--2336022 Score: 80
Period size: 19 Copynumber: 8.7 Consensus size: 19
2335862 TGAAAATAAA
2335872 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
2335891 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
2335906 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
2335924 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
2335939 -TCTCGTTGCGATTCTCAT
1 TTCGCGTTGCGATTTTCAT
*
2335957 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
2335972 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
2335990 TTCGCATTGCGATAGTCAT
1 TTCGCGTTGCGATTTTCAT
*
2336009 TTCCGTGTTGCGAT
1 TT-CGCGTTGCGAT
2336023 AGACATTAAG
Statistics
Matches: 95, Mismatches: 21, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 26 0.27
16 8 0.08
17 8 0.08
19 44 0.46
20 9 0.09
ACGTcount: A:0.12, C:0.25, G:0.20, T:0.44
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:2335918 original size:33 final size:33
Alignment explanation
Indices: 2335876--2336002 Score: 227
Period size: 33 Copynumber: 3.8 Consensus size: 33
2335866 AATAAATTCG
* *
2335876 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
2335909 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
2335942 CGTTGCGATTCTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
2335975 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
2336003 AGTCATTTCC
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 90 1.00
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:2335949 original size:14 final size:14
Alignment explanation
Indices: 2335897--2335984 Score: 68
Period size: 14 Copynumber: 5.6 Consensus size: 14
2335887 TCATTTCGCT
*
2335897 TTGCGATTCCCTCG
1 TTGCGATTCTCTCG
*
2335911 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
2335928 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
2335944 TTGCGATTCTCATTTCG
1 TTGCGATTCTC---TCG
2335961 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
2335977 TTGCGATT
1 TTGCGATT
2335985 TTCATTTCGC
Statistics
Matches: 61, Mismatches: 3, Indels: 20
0.73 0.04 0.24
Matches are distributed among these distances:
14 25 0.41
16 10 0.16
17 9 0.15
19 17 0.28
ACGTcount: A:0.11, C:0.26, G:0.19, T:0.43
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:2336021 original size:20 final size:20
Alignment explanation
Indices: 2335996--2336068 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
2335986 TCATTTCGCA
2335996 TTGCGATAGTCATTTCCGTG
1 TTGCGATAGTCATTTCCGTG
* **
2336016 TTGCGATAGACA-TTAAGATG
1 TTGCGATAGTCATTTCCG-TG
*
2336036 ATTGCGA-ACGTCATTTCCGTA
1 -TTGCGATA-GTCATTTCCGTG
2336057 TTGCGATAGTCA
1 TTGCGATAGTCA
2336069 AATGAATGCC
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.07
20 24 0.59
21 11 0.27
22 3 0.07
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGTG
Found at i:2338562 original size:24 final size:24
Alignment explanation
Indices: 2338528--2338581 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2338518 CTGAAAAATC
2338528 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
2338552 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
2338576 ATCAAA
1 ATCAAA
2338582 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:2338595 original size:24 final size:24
Alignment explanation
Indices: 2338528--2338595 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
2338518 CTGAAAAATC
* * *
2338528 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
2338552 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
2338576 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
2338596 TAATACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:2339857 original size:2 final size:2
Alignment explanation
Indices: 2339850--2339875 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2339840 GGATATTGAT
2339850 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2339876 ATGGACGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2345396 original size:22 final size:20
Alignment explanation
Indices: 2345365--2345405 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
2345355 TAAACTTACA
2345365 TTTAACTTGAGTATATATTAAC
1 TTTAACTTGAGT-T-TATTAAC
*
2345387 TTTAAGTTGAGTTTATTAA
1 TTTAACTTGAGTTTATTAA
2345406 TTTTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (20 bp):
TTTAACTTGAGTTTATTAAC
Found at i:2346014 original size:3 final size:3
Alignment explanation
Indices: 2346006--2346044 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
2345996 TCAGATTATC
2346006 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2346045 TATTATTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2346049 original size:3 final size:3
Alignment explanation
Indices: 2346043--2346091 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
2346033 AATAATAATA
*
2346043 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2346091 A
1 A
2346092 ACTTAAACTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:2346092 original size:6 final size:6
Alignment explanation
Indices: 2346006--2346092 Score: 57
Period size: 6 Copynumber: 14.3 Consensus size: 6
2345996 TCAGATTATC
* * * * * * *
2346006 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATTATT ATTATT
1 AATATT AATATT AATATT AATATT AATATT AATATT AA-TATT AATATT
* * * * *
2346055 ATTATT ATTATT ATTATT ATTATT ATTATT AATATT AA
1 AATATT AATATT AATATT AATATT AATATT AATATT AA
2346093 CTTAAACTAT
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
6 73 0.95
7 4 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
AATATT
Found at i:2346525 original size:2 final size:2
Alignment explanation
Indices: 2346518--2346543 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2346508 ATTTATACTA
2346518 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
2346544 TGTTGCAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2350975 original size:21 final size:21
Alignment explanation
Indices: 2350945--2350992 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
2350935 TAATTTTCAA
*
2350945 ACATTATTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
*
2350966 ACATTGTTGCATCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
2350987 ACATTG
1 ACATTG
2350993 CAATATTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (21 bp):
ACATTGTTGCACCTAATTTTG
Found at i:2353839 original size:18 final size:18
Alignment explanation
Indices: 2353795--2353842 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
2353785 TTTTTAAAGA
* *
2353795 AAATATATAAATATTTTCC
1 AAATATAT-AATATTATAC
*
2353814 AACT-TATAATATTATAC
1 AAATATATAATATTATAC
2353831 AAATATATAATA
1 AAATATATAATA
2353843 AGGATAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 11 0.46
18 10 0.42
19 3 0.12
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATATATAATATTATAC
Found at i:2353982 original size:18 final size:19
Alignment explanation
Indices: 2353959--2354001 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
2353949 CAATAATCCT
*
2353959 ATTCC-CTGGTAATCTTAC
1 ATTCCACTGATAATCTTAC
2353977 ATTCCCACTGATAATCTTAC
1 ATT-CCACTGATAATCTTAC
2353997 ATTCC
1 ATTCC
2354002 GTGAACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 4 0.18
20 15 0.68
ACGTcount: A:0.26, C:0.30, G:0.07, T:0.37
Consensus pattern (19 bp):
ATTCCACTGATAATCTTAC
Found at i:2357029 original size:225 final size:227
Alignment explanation
Indices: 2356639--2357093 Score: 871
Period size: 225 Copynumber: 2.0 Consensus size: 227
2356629 CCCAAGAATC
2356639 AAGTATAAAAGGTGTTATAATGCTAGAAGAAGATCATGAAAAAACAGACGCAAAGATAAATCTGA
1 AAGTATAAAAGGTGTTATAATGCTAGAAGAAGATCATGAAAAAACAGACGCAAAGATAAATCTGA
2356704 CCCTCTTTCTTTCTGTTTTGCTTTAAGCAGAACTGCTTTTGACGTACCACATCAGCAAAGACCAT
66 CCCTCTTTCTTTCTGTTTTGCTTTAAGCAGAACTGCTTTTGACGTACCACATCAGCAAAGACCAT
2356769 AAGAAAATCAAAATAGAAGACAGTGGCATTACA-TT-TATTACTTAAAGTTTGCTATTCCAGCAT
131 AAGAAAATCAAAATAGAAGACAGTGGCATTACATTTATATTACTTAAAGTTTGCTATTCCAGCAT
2356832 TTAAATTTCACACACAAGTCC-AAACTTTCAA
196 TTAAATTTCACACACAAGTCCAAAACTTTCAA
2356863 AAGTATAAAAGGTGTTATAATGCTAGAAGAAGATCATGAAGAAAACAGACGCAAAGATAAATCTG
1 AAGTATAAAAGGTGTTATAATGCTAGAAGAAGATCATGAA-AAAACAGACGCAAAGATAAATCTG
2356928 ACCCTCTTTCTTTCTGTTTTGCTTTAAGCAGAACTGCTTTTGACGTACCACATCAGCAAAGACCA
65 ACCCTCTTTCTTTCTGTTTTGCTTTAAGCAGAACTGCTTTTGACGTACCACATCAGCAAAGACCA
2356993 TAAGAAAATCAAAATAGAAGACAGTGGCATTACATTTACTATTACTTAAAGTTTGCTATTCCAGC
130 TAAGAAAATCAAAATAGAAGACAGTGGCATTACATTTA-TATTACTTAAAGTTTGCTATTCCAGC
2357058 ATTTAAATTTCACACACAAGTCCAAAACTTTCAA
194 ATTTAAATTTCACACACAAGTCCAAAACTTTCAA
2357092 AA
1 AA
2357094 ATCCTGACAA
Statistics
Matches: 226, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
224 40 0.18
225 123 0.54
226 2 0.01
228 49 0.22
229 12 0.05
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.28
Consensus pattern (227 bp):
AAGTATAAAAGGTGTTATAATGCTAGAAGAAGATCATGAAAAAACAGACGCAAAGATAAATCTGA
CCCTCTTTCTTTCTGTTTTGCTTTAAGCAGAACTGCTTTTGACGTACCACATCAGCAAAGACCAT
AAGAAAATCAAAATAGAAGACAGTGGCATTACATTTATATTACTTAAAGTTTGCTATTCCAGCAT
TTAAATTTCACACACAAGTCCAAAACTTTCAA
Found at i:2358789 original size:3 final size:3
Alignment explanation
Indices: 2358781--2358841 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
2358771 AACAAAAGAC
2358781 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
2358829 CTT CTT CTT CTT C
1 CTT CTT CTT CTT C
2358842 AACAAATTAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:2362009 original size:13 final size:13
Alignment explanation
Indices: 2361991--2362019 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2361981 CCACCGTACT
2361991 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
2362004 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
2362017 CCG
1 CCG
2362020 TAACGGTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.62, G:0.31, T:0.00
Consensus pattern (13 bp):
CCGCCGCCGGCCA
Found at i:2362783 original size:23 final size:22
Alignment explanation
Indices: 2362755--2362870 Score: 91
Period size: 23 Copynumber: 5.3 Consensus size: 22
2362745 TTATTCATTA
2362755 AATAATATAATATAATATTAAT
1 AATAATATAATATAATATTAAT
*
2362777 -A-AATAATAA-ATAATAATAAT
1 AATAAT-ATAATATAATATTAAT
* * * *
2362797 AATTAT-TATTATTATAATAAT
1 AATAATATAATATAATATTAAT
*
2362818 AATAATACTAATATAATTTTAAT
1 AATAATA-TAATATAATATTAAT
2362841 AATAATAATAATAATAA-ATTTAAT
1 AATAAT-ATAAT-ATAATA-TTAAT
2362865 -ATAATA
1 AATAATA
2362871 ATAAATTTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
20 15 0.20
21 21 0.28
22 3 0.04
23 26 0.35
24 10 0.13
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.41
Consensus pattern (22 bp):
AATAATATAATATAATATTAAT
Found at i:2362791 original size:3 final size:3
Alignment explanation
Indices: 2362755--2362874 Score: 97
Period size: 3 Copynumber: 40.7 Consensus size: 3
2362745 TTATTCATTA
*
2362755 AAT AAT -AT AAT -AT AAT ATT AAT AAAT AAT AAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AAT AAT AAT AAT AAT
* * * * * **
2362800 TAT TAT TAT TAT AAT AAT AAT AAT ACT AAT -AT AAT TTT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
2362847 AAT AAT AAT AA- ATTT AAT -AT AAT AAT AA
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AA
2362875 ATTTAAATGA
Statistics
Matches: 97, Mismatches: 12, Indels: 16
0.78 0.10 0.13
Matches are distributed among these distances:
2 9 0.09
3 81 0.84
4 7 0.07
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (3 bp):
AAT
Found at i:2363133 original size:75 final size:76
Alignment explanation
Indices: 2362996--2363731 Score: 1278
Period size: 76 Copynumber: 9.8 Consensus size: 76
2362986 GATAGAAATG
* * *
2362996 TTTTGAAAACATCATGCACTGAAGGGC-TACAGATGACCCGAAGGCTTTGAAAAGATCAAAAAGC
1 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
2363060 TCCCGAAGGCT
66 TCCCGAAGGCT
2363071 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGC
1 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
2363135 TCCCGAAGGC-
66 TCCCGAAGGCT
2363145 TTTTGGAAACATCATGCACTG-AGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGC
1 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
2363208 TCCCGAAGGCTT
66 TCCCGAAGGC-T
2363220 TTTTGG-AA-A-CATGCACTGAAGGACTTACAGATGACCC-AAGGCTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
2363281 TCCCGAAGGCTT
66 TCCCGAAGGC-T
2363293 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
2363358 TCCCGAAGGCTT
66 TCCCGAAGGC-T
2363370 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC-AAGGCTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
2363434 TCCCGAAGGCTT
66 TCCCGAAGGC-T
*
2363446 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGGAGGCTTT-AAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
2363510 TCCCGAAGGCT
66 TCCCGAAGGCT
2363521 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
*
2363586 TTCCGAAGGCT
66 TCCCGAAGGCT
* *
2363597 TTTTGGAAACATCATGCACTAAAGGACTTACAGATGACTCGAAGGCTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
2363662 TCCCGAAGGCT
66 TCCCGAAGGCT
* *
2363673 TTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
1 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
2363732 TGCACTGAAG
Statistics
Matches: 637, Mismatches: 13, Indels: 21
0.95 0.02 0.03
Matches are distributed among these distances:
72 26 0.04
73 95 0.15
74 25 0.04
75 97 0.15
76 311 0.49
77 83 0.13
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (76 bp):
TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
TCCCGAAGGCT
Found at i:2363737 original size:121 final size:119
Alignment explanation
Indices: 2363588--2363810 Score: 367
Period size: 121 Copynumber: 1.8 Consensus size: 119
2363578 CAAAAAGCTT
*
2363588 CCGAAGGCTTTTTGGAAACATCATGCACTAAAGGACTTACAGATGACTCGAAGGCTTTGAAAACA
1 CCGAAGGC-TTTTGAAAACATCATGCACTAAAGGACTTACAGATGAC-CGAAGGCTTTGAAAACA
2363653 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGAC
64 TCAAAAAGCTCCCGAA-GC-TTTTGGAAACATCATGCACTGAAGGGCTTACAGATGAC
* * *
2363711 CCGAAGG-TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCGAAGGTTTTGAAAACATC
1 CCGAAGGCTTTTGAAAACATCATGCACTAAAGGACTTACAGATGACCGAAGGCTTTGAAAACATC
2363775 AAAAAGCTCCCGAAGCTTTTGGAAACATCATGCACT
66 AAAAAGCTCCCGAAGCTTTTGGAAACATCATGCACT
2363811 ACTTACAGAT
Statistics
Matches: 96, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
118 20 0.21
119 2 0.02
120 32 0.33
121 35 0.36
123 7 0.07
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.23
Consensus pattern (119 bp):
CCGAAGGCTTTTGAAAACATCATGCACTAAAGGACTTACAGATGACCGAAGGCTTTGAAAACATC
AAAAAGCTCCCGAAGCTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGAC
Found at i:2363774 original size:44 final size:45
Alignment explanation
Indices: 2363663--2363775 Score: 192
Period size: 45 Copynumber: 2.5 Consensus size: 45
2363653 TCAAAAAGCT
*
2363663 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
2363710 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
2363755 -CCGAAGGTTTTGAAAACATCA
1 CCCGAAGGTTTTGAAAACATCA
2363776 AAAAGCTCCC
Statistics
Matches: 65, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
44 21 0.32
45 36 0.55
47 8 0.12
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:2365071 original size:54 final size:54
Alignment explanation
Indices: 2364875--2365078 Score: 267
Period size: 53 Copynumber: 3.9 Consensus size: 54
2364865 ATAATCACTG
* * * *
2364875 GTTCGT-AAACATTTGACAATACATTCATCTTTTTCTGTGAC-TCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGCTCAGAT
* * * * * *
2364927 GTTCATAAAATATTTGACCACACATTCATCCTTTCCTGTGGTTTCTGTTCA-AT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGCTCAGAT
*
2364980 GTTCGTAAAACATTTG---ACACATTCATCTTTTACTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGCTCAGAT
2365031 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGC
2365079 CAAGATTTCT
Statistics
Matches: 130, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
50 28 0.22
51 18 0.14
52 5 0.04
53 44 0.34
54 35 0.27
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.39
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGCTCAGAT
Found at i:2365077 original size:104 final size:103
Alignment explanation
Indices: 2364875--2365077 Score: 300
Period size: 104 Copynumber: 1.9 Consensus size: 103
2364865 ATAATCACTG
* *
2364875 GTTCGTAAACATTTGACAATACATTCATCTTTTTCTGTGACTCTGCTCAGATGTTCATAAAATAT
1 GTTCGTAAACATTTGAC-A-ACATTCATCTTTTACTGTGACTCTGCTCAGATGTTCATAAAACAT
* * *
2364940 TTGACCACACATTCATCCTTTCCTGTGGTTTCTGTTCAAT
64 TTGACAACACATTCATCCTTTACTGTGGCTTCTGTTCAAT
* *
2364980 GTTCGTAAAACATTTGAC-ACATTCATCTTTTACTGTGGCTTCTGCTCAGATGTTCGTAAAACAT
1 GTTCGT-AAACATTTGACAACATTCATCTTTTACTGTGAC-TCTGCTCAGATGTTCATAAAACAT
2365044 TTGACAACACATTCATCCTTTACTGTGGCTTCTG
64 TTGACAACACATTCATCCTTTACTGTGGCTTCTG
2365078 CCAAGATTTC
Statistics
Matches: 89, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
103 19 0.21
104 53 0.60
105 6 0.07
106 11 0.12
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (103 bp):
GTTCGTAAACATTTGACAACATTCATCTTTTACTGTGACTCTGCTCAGATGTTCATAAAACATTT
GACAACACATTCATCCTTTACTGTGGCTTCTGTTCAAT
Found at i:2366255 original size:35 final size:35
Alignment explanation
Indices: 2366196--2366266 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 35
2366186 CTTGTTGAGA
2366196 TGAGCCTCCAAGAATGCCCAAATATTCATATTGCTG
1 TGAGCCTCCAAGAATGCCCAAATATTC-TATTGCTG
* *
2366232 TGAGCCTTCAA-AATGCTCC-AATATTCTATTTCTG
1 TGAGCCTCCAAGAATGC-CCAAATATTCTATTGCTG
2366266 T
1 T
2366267 TGAAATGGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 8 0.25
35 12 0.38
36 12 0.38
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (35 bp):
TGAGCCTCCAAGAATGCCCAAATATTCTATTGCTG
Found at i:2367345 original size:114 final size:112
Alignment explanation
Indices: 2367147--2367350 Score: 302
Period size: 114 Copynumber: 1.8 Consensus size: 112
2367137 GATCATGCAG
* * **
2367147 TTCATCTTTCAATTCCAATGATCGGTTCTGGGGTTCCTACAAATTAGATCAGATAATCAAAGAAC
1 TTCATCTTTCAAATCCAATGATCGGTTCTGGGGTTCATACAAACCAGATCAGATAATCAAAGAAC
*
2367212 ACTTCCAGAAGATGCTATTGGGTCTCCTTGTTTCTACCATGAGCAAA
66 ACTTCCAGAAGATGCTATTGAGTCTCCTTGTTTCTACCATGAGCAAA
* * *
2367259 TTCATCTTTCAAATCC-ATGATTGGTTTTTTGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATCGG-TTCTGGGGTTCATA-CAAACCAGATCAGATAA-TCAAAG
2367323 AACACTTCCAGAAGATGCTATTGAGTCT
63 AACACTTCCAGAAGATGCTATTGAGTCT
2367351 TCTTATTTTA
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
111 7 0.09
112 26 0.32
113 15 0.19
114 33 0.41
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (112 bp):
TTCATCTTTCAAATCCAATGATCGGTTCTGGGGTTCATACAAACCAGATCAGATAATCAAAGAAC
ACTTCCAGAAGATGCTATTGAGTCTCCTTGTTTCTACCATGAGCAAA
Found at i:2375757 original size:13 final size:13
Alignment explanation
Indices: 2375739--2375767 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2375729 CCACCGTACT
2375739 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
2375752 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
2375765 CCG
1 CCG
2375768 TAACGGTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.62, G:0.31, T:0.00
Consensus pattern (13 bp):
CCGCCGCCGGCCA
Found at i:2376525 original size:3 final size:3
Alignment explanation
Indices: 2376517--2376644 Score: 150
Period size: 3 Copynumber: 41.7 Consensus size: 3
2376507 TTATTCATTA
*
2376517 AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * * * *
2376564 AAT AAT TAT TAT TAT AAT AAT AAT AAT ACT AAT AAT AAT ATTT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
*
2376610 AAT AAT AAT AAT AAT AA- ATTT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AA
2376645 ATTTAAATGA
Statistics
Matches: 110, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
2 1 0.01
3 100 0.91
4 9 0.08
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:2377239 original size:21 final size:21
Alignment explanation
Indices: 2377215--2377261 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 21
2377205 TTTTTAATGT
2377215 TAAATATATCTTAAC-TTAAA
1 TAAATATATCTTAACATTAAA
2377235 -ATAA-A-ATCTTAACATTAAA
1 TA-AATATATCTTAACATTAAA
2377254 -AAATATAT
1 TAAATATAT
2377262 TTTATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
18 10 0.43
19 9 0.39
20 4 0.17
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAATATATCTTAACATTAAA
Found at i:2377366 original size:30 final size:30
Alignment explanation
Indices: 2377330--2377503 Score: 140
Period size: 30 Copynumber: 5.8 Consensus size: 30
2377320 TAATATTATA
*
2377330 TTAACTTATAAAATATATTTTATTCCTACC
1 TTAACTTATAAAATATATTTTATTCTTACC
* * *
2377360 TTAACTT-CAAAATATATTTTATTTTTATC
1 TTAACTTATAAAATATATTTTATTCTTACC
* * * * *
2377389 TTAACTTGTTACATATATTATATTCTTAAC
1 TTAACTTATAAAATATATTTTATTCTTACC
* * *
2377419 TTAAATTA-ATAAATATATTATATTCTTACT
1 TTAACTTATA-AAATATATTTTATTCTTACC
* * * *
2377449 TTAAATGATTAAATAT-TATTTATTCTTATC
1 TTAACTTATAAAATATAT-TTTATTCTTACC
2377479 TTAACTTGA-AAATATATATTTTATT
1 TTAACTT-ATAAA-ATATATTTTATT
2377504 TTAATTTTTT
Statistics
Matches: 113, Mismatches: 24, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
29 26 0.23
30 75 0.66
31 11 0.10
32 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (30 bp):
TTAACTTATAAAATATATTTTATTCTTACC
Found at i:2378393 original size:24 final size:24
Alignment explanation
Indices: 2378364--2378409 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
2378354 TTTAATATTC
*
2378364 GTGAACGTGTTCATTTAAATGTCT
1 GTGAACATGTTCATTTAAATGTCT
*
2378388 GTGAACATGTTCATTTATATGT
1 GTGAACATGTTCATTTAAATGT
2378410 TTGTTTATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (24 bp):
GTGAACATGTTCATTTAAATGTCT
Found at i:2380478 original size:34 final size:34
Alignment explanation
Indices: 2380435--2380505 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
2380425 ATATATATAT
2380435 ATATATAATCTTAATATAAAATGTTCTATTCCAA
1 ATATATAATCTTAATATAAAATGTTCTATTCCAA
2380469 ATATATAATCTTAATATAAAATGTTCTATTCCAA
1 ATATATAATCTTAATATAAAATGTTCTATTCCAA
2380503 ATA
1 ATA
2380506 AAGTGATCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.41
Consensus pattern (34 bp):
ATATATAATCTTAATATAAAATGTTCTATTCCAA
Found at i:2381605 original size:2 final size:2
Alignment explanation
Indices: 2381600--2381634 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2381590 ATATATAAGC
2381600 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2381635 TTAATATGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2388433 original size:44 final size:43
Alignment explanation
Indices: 2388350--2388445 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 43
2388340 TTGTGCATAA
* * * * * *
2388350 TGCAACGATACACTAGATAGTGTACTGATGCATCCCTTGAATG
1 TGCATCGATACACCAGAAAGTGCACCGATGCATCACTTGAATG
*
2388393 TGCATCGATACACCATGAAAGTGCACCGATGCATTACTTGAATG
1 TGCATCGATACACCA-GAAAGTGCACCGATGCATCACTTGAATG
2388437 TGCATCGAT
1 TGCATCGAT
2388446 GCACTTTGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 13 0.29
44 32 0.71
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (43 bp):
TGCATCGATACACCAGAAAGTGCACCGATGCATCACTTGAATG
Found at i:2391147 original size:66 final size:65
Alignment explanation
Indices: 2391076--2391211 Score: 184
Period size: 66 Copynumber: 2.1 Consensus size: 65
2391066 CACCCATTTC
* * *
2391076 GAATGCATTTTGTGTACCGATGCACA-AGTCATGCATCGATGCACTCTTGAAATATTTTGAAACA
1 GAATGCATTTTATGTACCGATGCACATA-CCATGCATCGATGCACTCCT-AAATATTTTGAAACA
2391140 TT
64 TT
* ** *
2391142 GAATGCATTTTATGTACTGATGCACATACCATGCATCGATGCACTCCTAGCTTTTTTGAAACATT
1 GAATGCATTTTATGTACCGATGCACATACCATGCATCGATGCACTCCTAAATATTTTGAAACATT
2391207 GAATG
1 GAATG
2391212 TAATTAGTGT
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
65 19 0.31
66 42 0.68
67 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (65 bp):
GAATGCATTTTATGTACCGATGCACATACCATGCATCGATGCACTCCTAAATATTTTGAAACATT
Found at i:2391230 original size:65 final size:66
Alignment explanation
Indices: 2391105--2391231 Score: 168
Period size: 65 Copynumber: 1.9 Consensus size: 66
2391095 ATGCACAAGT
* * *
2391105 CATGCATCGATGCACTCTTGAAATATTTTGAAACATTGAATGCATTTTATGTACTGATGCACATA
1 CATGCATCGATGCACTCCTGAAATATTTTGAAACATTGAATGCATATTATGTACTAATGCACATA
2391170 C
66 C
** * *
2391171 CATGCATCGATGCACTCCT-AGCTTTTTTGAAACATTGAATGTA-ATTAGTGTACTAATGCAC
1 CATGCATCGATGCACTCCTGAAATATTTTGAAACATTGAATGCATATTA-TGTACTAATGCAC
2391232 CCCTAGTGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
64 3 0.06
65 32 0.60
66 18 0.34
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.35
Consensus pattern (66 bp):
CATGCATCGATGCACTCCTGAAATATTTTGAAACATTGAATGCATATTATGTACTAATGCACATA
C
Found at i:2399419 original size:11 final size:11
Alignment explanation
Indices: 2399396--2399428 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
2399386 TCTCCCTCTC
*
2399396 TCTTTTTCT-T
1 TCTTTTTTTAT
2399406 TCTTTTTTTAT
1 TCTTTTTTTAT
2399417 TCTTTTTTTAT
1 TCTTTTTTTAT
2399428 T
1 T
2399429 TTCCATTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (11 bp):
TCTTTTTTTAT
Found at i:2405514 original size:2 final size:2
Alignment explanation
Indices: 2405507--2405532 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2405497 AAATTATCCA
2405507 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
2405533 TAGGTTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2412521 original size:51 final size:51
Alignment explanation
Indices: 2412445--2412547 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
2412435 GCAGTGTTCC
2412445 ATAATGAGGGCAACATAAATACAGACTCGATAATAAGGAAGAACAAAACAG
1 ATAATGAGGGCAACATAAATACAGACTCGATAATAAGGAAGAACAAAACAG
2412496 ATAATGAGGGCAACATAAATACAGACTCGATAATAAGGAAGAACAAAACAG
1 ATAATGAGGGCAACATAAATACAGACTCGATAATAAGGAAGAACAAAACAG
2412547 A
1 A
2412548 AACTTGTTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.53, C:0.14, G:0.19, T:0.14
Consensus pattern (51 bp):
ATAATGAGGGCAACATAAATACAGACTCGATAATAAGGAAGAACAAAACAG
Found at i:2417326 original size:18 final size:19
Alignment explanation
Indices: 2417293--2417328 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2417283 AAAAAATACT
2417293 AAATAAATTAAAGAGAAAA
1 AAATAAATTAAAGAGAAAA
*
2417312 AAATGAATT-AAGAGAAA
1 AAATAAATTAAAGAGAAA
2417329 CAATGTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (19 bp):
AAATAAATTAAAGAGAAAA
Found at i:2418528 original size:24 final size:24
Alignment explanation
Indices: 2418484--2418533 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
2418474 GGGATATGCA
* *
2418484 AAAATAATTATAAATTAATAAAAT
1 AAAATAATAATAAAATAATAAAAT
*
2418508 AAAATAATAATAATAAT-ATAATAT
1 AAAATAATAATAA-AATAATAAAAT
2418532 AA
1 AA
2418534 TTTTTTTGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
AAAATAATAATAAAATAATAAAAT
Found at i:2419003 original size:67 final size:66
Alignment explanation
Indices: 2418874--2419020 Score: 204
Period size: 67 Copynumber: 2.2 Consensus size: 66
2418864 AAAGTCTTTA
* * * * * * *
2418874 TGTTTCAAGAGAAACATTTTCAAAGGTTTTTTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATA
1 TGTTTCAAGAGAAACATATTCAAAGATTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACA
2418939 T
66 T
2418940 TGTTTCAAGAGAAACATATTCAAAGATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
1 TGTTTCAAGAGAAACATATTCAAAGATT-GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
*
2419005 GT
65 AT
*
2419007 TGTTTCAAGGGAAA
1 TGTTTCAAGAGAAA
2419021 TTGTCTCAAG
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
66 26 0.37
67 45 0.63
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (66 bp):
TGTTTCAAGAGAAACATATTCAAAGATTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACA
T
Found at i:2419026 original size:37 final size:37
Alignment explanation
Indices: 2418970--2419150 Score: 204
Period size: 37 Copynumber: 5.1 Consensus size: 37
2418960 CAAAGATTGG
*
2418970 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACGT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
* *
2419007 TGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
* *
2419043 TGTTTCAAG-GAAAACATAT-TC-A-A-AG-----ATTT
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAACTT
*
2419072 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
*
2419109 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACAT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
2419146 TGTTT
1 TGTTT
2419151 TGAGTAAATT
Statistics
Matches: 122, Mismatches: 9, Indels: 26
0.78 0.06 0.17
Matches are distributed among these distances:
28 3 0.02
29 17 0.14
30 2 0.02
31 1 0.01
32 2 0.02
33 2 0.02
34 1 0.01
35 2 0.02
36 15 0.12
37 77 0.63
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.27
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
Found at i:2419098 original size:102 final size:104
Alignment explanation
Indices: 2418905--2419150 Score: 390
Period size: 102 Copynumber: 2.4 Consensus size: 104
2418895 AAAGGTTTTT
* *
2418905 TTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATATTGTTTCAAGAGAAACATATTCAAAGATTGG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATATTGTTTCAAGAGAAACATATTCAAAGATTGG
*
2418970 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACGTTG
66 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAAGTTG
* *
2419009 TTTCAAGGGAAATTGTCTCAAGAGAGACAAAAT-TTGTTTCAAG-GAAAACATATTCAAAGATT-
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATATTGTTTCAAGAG-AAACATATTCAAAGATTG
* *
2419071 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTTG
65 GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAAGTTG
*
2419111 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACATTGTTT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATATTGTTT
2419151 TGAGTAAATT
Statistics
Matches: 130, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
102 68 0.52
103 33 0.25
104 29 0.22
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (104 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATATTGTTTCAAGAGAAACATATTCAAAGATTGG
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAAGTTG
Found at i:2419166 original size:37 final size:36
Alignment explanation
Indices: 2419070--2419177 Score: 130
Period size: 37 Copynumber: 2.9 Consensus size: 36
2419060 ATTCAAAGAT
2419070 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAA
1 TTTGTTT-AAGAGAAACTGTCTCAAGAGAGACAAAAA
2419107 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACA
1 TTTGTTT-AAGAGAAACTGTCTCAAGAGAGACAAAA-A
* * *
2419145 -TTGTTT-TGAGTAAATTAGTCTCAAGCGAGACAA
1 TTTGTTTAAGAG-AAACT-GTCTCAAGAGAGACAA
2419178 CTCCTTGTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
35 3 0.05
36 4 0.06
37 57 0.88
38 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (36 bp):
TTTGTTTAAGAGAAACTGTCTCAAGAGAGACAAAAA
Found at i:2419745 original size:253 final size:252
Alignment explanation
Indices: 2419253--2419910 Score: 899
Period size: 253 Copynumber: 2.6 Consensus size: 252
2419243 TTGTTGGTGG
* * *
2419253 GTACGATTCCCTTCGTCGTGAAGTTGAGACCGCAGATGGCCCCTTCGTTGTGAAGTTGAGCCTTG
1 GTACGATTCCCTTCGTCGTGAAGTTGAAACCGCGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTG
*** *
2419318 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATGTAAGTTGCGCTGTTACGAGGCCAATATC
66 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAA-GTAAGTTGTATTGTTACGAGTCCAATATC
* *
2419383 CTTCGCTGTGAAGTTAAAATT-GACTCTGAAAATAGAAAGTTTATTGATAGACACTCATTCTTTG
130 C-TCGCTGTGAAGTTGAAATTGGACTCTGAAAATAGAAAGTTTATTGACAGACACTCATTCTTTG
* * *
2419447 AGTTAGATATCATTCGTCGTGAAGTTGAAATCCAATCTAGAGATGGATGCTGCTTGTGT
194 AATTAGATATCATTCATCGTGAAGTTGAAATCCAATCTAGAGATGGATGCTGCTTGTCT
* * *
2419506 GTACGATTCCCCTCGTCGTGAAGTTGAAACCACGGGTGGCCCCTTCGTCGTGAAGTTGAGCC-TG
1 GTACGATTCCCTTCGTCGTGAAGTTGAAACCGCGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTG
* **
2419570 AAATTGGATATCCTTCGTCGTGAAGTTGAAATCTAAGTAAGTTGTATTGTTTTGAGTCCAATATC
66 -AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGTAAGTTGTATTGTTACGAGTCCAATATC
* * * * *
2419635 CTCAGTTGTGAAGTTGAAATTGGA-TTTGAAACTGGAAAGTTTATTGACATACACTCATTCTTTG
130 CTC-GCTGTGAAGTTGAAATTGGACTCTGAAAATAGAAAGTTTATTGACAGACACTCATTCTTTG
* * *
2419699 AATTGGATATCCTTCATCGTGAAGTTGAAATCCAAATCTGGAGATGGATGCTGCTTGTCT
194 AATTAGATATCATTCATCGTGAAGTTGAAATCC-AATCTAGAGATGGATGCTGCTTGTCT
* * * * * *
2419759 GCACGATTCCCTTCGTCGTGAAGTTGAAACTGTGGATGACCCCTCCTTCGTGAAGTTGAGCCTTG
1 GTACGATTCCCTTCGTCGTGAAGTTGAAACCGCGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTG
* * * *
2419824 AATTGGATAGCCTTCATCGTGAAGTTGAAATCCAAGTAAGTTGTATTATTCCGAGTCCAATATCC
66 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGTAAGTTGTATTGTTACGAGTCCAATATCC
**
2419889 TCTGCCATGAAGTTGAAATTGG
131 TC-GCTGTGAAGTTGAAATTGG
2419911 CTGTGGAATT
Statistics
Matches: 355, Mismatches: 45, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
251 2 0.01
252 105 0.30
253 246 0.69
254 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (252 bp):
GTACGATTCCCTTCGTCGTGAAGTTGAAACCGCGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTG
AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGTAAGTTGTATTGTTACGAGTCCAATATCC
TCGCTGTGAAGTTGAAATTGGACTCTGAAAATAGAAAGTTTATTGACAGACACTCATTCTTTGAA
TTAGATATCATTCATCGTGAAGTTGAAATCCAATCTAGAGATGGATGCTGCTTGTCT
Found at i:2420108 original size:94 final size:90
Alignment explanation
Indices: 2419982--2420168 Score: 250
Period size: 90 Copynumber: 2.0 Consensus size: 90
2419972 ATGCTGTCTC
* *
2419982 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATT-GACTCTGAACGAAGCTGAAAAGTTACTTGTT
1 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGA-TCTG-A--AA-CTGAAAAGTTACTTGTT
* *
2420046 GACAATCAGTCGCCCCTTCGTTGTGAAGTT
61 AACAACCAGTCGCCCCTTCGTTGTGAAGTT
** **
2420076 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGATCTGAAACTGGGAAGTTGTTTGTTAACAA
1 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGATCTGAAACTGAAAAGTTACTTGTTAACAA
2420141 CCAGTCGCCCCTTCGTTGTGAAGTT
66 CCAGTCGCCCCTTCGTTGTGAAGTT
2420166 GAG
1 GAG
2420169 CTTGTGTTGT
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
90 44 0.52
91 2 0.02
93 1 0.01
94 35 0.42
95 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.32
Consensus pattern (90 bp):
GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGATCTGAAACTGAAAAGTTACTTGTTAACAA
CCAGTCGCCCCTTCGTTGTGAAGTT
Found at i:2420222 original size:200 final size:200
Alignment explanation
Indices: 2419896--2420277 Score: 530
Period size: 200 Copynumber: 1.9 Consensus size: 200
2419886 TCCTCTGCCA
* * * * * *
2419896 TGAAGTTGAAATTGGCTGTGGAATTGGGAAATTGTTTGTTGACAGCCAGTCGCCCCTTCGCTATG
1 TGAAGTTGAAATTGGATCTGAAACTGGGAAATTGTTTGTTAACAACCAGTCGCCCCTTCGCTATG
* * * *
2419961 AAGTTGAGCTTATGCTGTCTCGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAACG
66 AAGTTGAGCTTATGCTGTCTCGAGTCCAATATCCTTCGCTATGAAATTGAAATTAACTCTGAACG
* * **
2420026 AAGCTGAAAAGTTACTTGTTGACAATCAGTCGCCCCTTCGTTGTGAAGTTGAGTCCAATATCCTT
131 AAACTGAAAAGTTACTTGTTGACAATCAGTCCCCCCTTCACTGTGAAGTTGAGTCCAATATCCTT
2420091 CACTG
196 CACTG
* * *
2420096 TGAAGTTGAAATTGGATCTGAAACTGGGAAGTTGTTTGTTAACAACCAGTCGCCCCTTCGTTGTG
1 TGAAGTTGAAATTGGATCTGAAACTGGGAAATTGTTTGTTAACAACCAGTCGCCCCTTCGCTATG
* * * * *
2420161 AAGTTGAGCTTGTGTTGTCTTGAGTCCAATATTCTTCGCTATGAAATTGAAATTAACTCTGAATG
66 AAGTTGAGCTTATGCTGTCTCGAGTCCAATATCCTTCGCTATGAAATTGAAATTAACTCTGAACG
** * *
2420226 AAACTGAAAAGTTGTTTGTTGATAGTCAGTCCCCCCTTCACTGTGAAGTTGA
131 AAACTGAAAAGTTACTTGTTGACAATCAGTCCCCCCTTCACTGTGAAGTTGA
2420278 ACAACCACCA
Statistics
Matches: 156, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
200 156 1.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (200 bp):
TGAAGTTGAAATTGGATCTGAAACTGGGAAATTGTTTGTTAACAACCAGTCGCCCCTTCGCTATG
AAGTTGAGCTTATGCTGTCTCGAGTCCAATATCCTTCGCTATGAAATTGAAATTAACTCTGAACG
AAACTGAAAAGTTACTTGTTGACAATCAGTCCCCCCTTCACTGTGAAGTTGAGTCCAATATCCTT
CACTG
Found at i:2421162 original size:83 final size:88
Alignment explanation
Indices: 2421066--2421293 Score: 270
Period size: 95 Copynumber: 2.6 Consensus size: 88
2421056 TGGCTAGATG
*
2421066 TATCCATAAAGCCAGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAA-TA-TG-TAA-AT-A
1 TATCCATAAAGCCAGGGTGTTTAACCAATTGCTCTAGAGGGACAACTCAATTATTGATAATATAA
* * *
2421126 CCTTTATCAAGTTAGTTGAATCT
66 CCTTTATCAAGCTAGCTGAATAT
*
2421149 TATCCATAAAGCCATGGTGTTTAACCAATTGC-CTTAGAGGGACAACTCAAGCTTTATTGTATAA
1 TATCCATAAAGCCAGGGTGTTTAACCAATTGCTC-TAGAGGGACAACTCAA---TTATTG-ATAA
*
2421213 TATAACCACCTTTATCAGGCTAGCTGAATAT
61 TAT-A--ACCTTTATCAAGCTAGCTGAATAT
* *
2421244 TATACATAAAGCCGGGGTGTTTAACCAATTGCTCTAGAGGGACAACTCAA
1 TATCCATAAAGCCAGGGTGTTTAACCAATTGCTCTAGAGGGACAACTCAA
2421294 GCTTTATTGT
Statistics
Matches: 122, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
82 1 0.01
83 46 0.38
87 2 0.02
88 2 0.02
90 3 0.02
91 2 0.02
95 65 0.53
96 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (88 bp):
TATCCATAAAGCCAGGGTGTTTAACCAATTGCTCTAGAGGGACAACTCAATTATTGATAATATAA
CCTTTATCAAGCTAGCTGAATAT
Found at i:2421288 original size:95 final size:95
Alignment explanation
Indices: 2421125--2421303 Score: 279
Period size: 95 Copynumber: 1.9 Consensus size: 95
2421115 ATATGTAAAT
* * * * *
2421125 ACCTTTATCAAGTTAGTTGAATCTTATCCATAAAGCCATGGTGTTTAACCAATTGCCTTAGAGGG
1 ACCTTTATCAAGCTAGCTGAATATTATACATAAAGCCAGGGTGTTTAACCAATTGCCTTAGAGGG
2421190 ACAACTCAAGCTTTATTGTATAATATAACC
66 ACAACTCAAGCTTTATTGTATAATATAACC
* *
2421220 ACCTTTATCAGGCTAGCTGAATATTATACATAAAGCCGGGGTGTTTAACCAATTG-CTCTAGAGG
1 ACCTTTATCAAGCTAGCTGAATATTATACATAAAGCCAGGGTGTTTAACCAATTGCCT-TAGAGG
2421284 GACAACTCAAGCTTTATTGT
65 GACAACTCAAGCTTTATTGT
2421304 GTATAAGTAA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
94 2 0.03
95 74 0.97
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (95 bp):
ACCTTTATCAAGCTAGCTGAATATTATACATAAAGCCAGGGTGTTTAACCAATTGCCTTAGAGGG
ACAACTCAAGCTTTATTGTATAATATAACC
Found at i:2423426 original size:19 final size:20
Alignment explanation
Indices: 2423384--2423435 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
2423374 GAAACCCCTT
*
2423384 TGAAAATACATGATTTTTTGA
1 TGAAAATACATGA-TTTTTAA
2423405 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
2423424 TGAAGATACATG
1 TGAAAATACATG
2423436 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 16 0.55
21 13 0.45
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:2424131 original size:30 final size:31
Alignment explanation
Indices: 2424091--2424150 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
2424081 ACATGCTGCC
**
2424091 ATGATATCTAAATGAAATGCAAACATAATAA
1 ATGATATCTAAAACAAATGCAAACATAATAA
* *
2424122 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACAAATGCAAACATAATA
2424151 TAAAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.27
Consensus pattern (31 bp):
ATGATATCTAAAACAAATGCAAACATAATAA
Found at i:2426573 original size:5 final size:5
Alignment explanation
Indices: 2426563--2426613 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 5
2426553 GAACTTCTCT
2426563 TTTTC TTTTC TTTTC TTTTC TTCTT- TTCTTC TTTTC TTCTT- TTATTC
1 TTTTC TTTTC TTTTC TTTTC TT-TTC TT-TTC TTTTC TT-TTC TT-TTC
2426610 TTTT
1 TTTT
2426614 ATGATTTTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
5 33 0.80
6 8 0.20
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:2426615 original size:8 final size:8
Alignment explanation
Indices: 2426556--2426613 Score: 73
Period size: 8 Copynumber: 7.0 Consensus size: 8
2426546 TCTTTTTGAA
2426556 CTTCTCTTT
1 CTTCT-TTT
2426565 -TTCTTTT
1 CTTCTTTT
2426572 CTTTTCTTTT
1 C--TTCTTTT
2426582 CTTCTTTT
1 CTTCTTTT
2426590 CTTCTTTT
1 CTTCTTTT
2426598 CTTCTTTT
1 CTTCTTTT
*
2426606 ATTCTTTT
1 CTTCTTTT
2426614 ATGATTTTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
7 3 0.07
8 34 0.76
10 8 0.18
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (8 bp):
CTTCTTTT
Found at i:2427375 original size:19 final size:20
Alignment explanation
Indices: 2427333--2427384 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
2427323 GAAACCCCTT
*
2427333 TGAAAATACATGATTTTTTGA
1 TGAAAATACATGA-TTTTTAA
2427354 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
2427373 TGAAGATACATG
1 TGAAAATACATG
2427385 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 16 0.55
21 13 0.45
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:2427453 original size:11 final size:11
Alignment explanation
Indices: 2427437--2427463 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2427427 ATTTGAATGC
2427437 ATTTGGAAGTT
1 ATTTGGAAGTT
2427448 ATTTGGAAGTT
1 ATTTGGAAGTT
2427459 ATTTG
1 ATTTG
2427464 AATGCAGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (11 bp):
ATTTGGAAGTT
Found at i:2427985 original size:30 final size:31
Alignment explanation
Indices: 2427945--2428004 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
2427935 ACATGCTGCC
**
2427945 ATGATATCTAAATGAAATGCAAACATAATAA
1 ATGATATCTAAAACAAATGCAAACATAATAA
* *
2427976 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACAAATGCAAACATAATA
2428005 TAAAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.27
Consensus pattern (31 bp):
ATGATATCTAAAACAAATGCAAACATAATAA
Found at i:2432449 original size:21 final size:21
Alignment explanation
Indices: 2432394--2432443 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
2432384 TCAGAACTCT
2432394 CTGGTTCTTGTTCATCATGTG
1 CTGGTTCTTGTTCATCATGTG
2432415 CTGGTTCTTGTTCATCATGTG
1 CTGGTTCTTGTTCATCATGTG
2432436 CTGGTTCT
1 CTGGTTCT
2432444 GCTTCAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.08, C:0.20, G:0.24, T:0.48
Consensus pattern (21 bp):
CTGGTTCTTGTTCATCATGTG
Found at i:2434557 original size:14 final size:14
Alignment explanation
Indices: 2434538--2434579 Score: 84
Period size: 14 Copynumber: 3.0 Consensus size: 14
2434528 ATGGCCATCA
2434538 TCTTCAATTTCCAC
1 TCTTCAATTTCCAC
2434552 TCTTCAATTTCCAC
1 TCTTCAATTTCCAC
2434566 TCTTCAATTTCCAC
1 TCTTCAATTTCCAC
2434580 AATGAGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (14 bp):
TCTTCAATTTCCAC
Found at i:2435349 original size:2 final size:2
Alignment explanation
Indices: 2435344--2435382 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
2435334 CATTCTCATG
*
2435344 TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2435383 CGTTTACATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2436548 original size:20 final size:20
Alignment explanation
Indices: 2436522--2436581 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
2436512 CTTTTGGTTG
2436522 AAATGAAAATCGCAACGAGA
1 AAATGAAAATCGCAACGAGA
* *
2436542 TAATGAAAATCGCAACGCGA
1 AAATGAAAATCGCAACGAGA
**
2436562 AAATGACTATCGCAACGAGA
1 AAATGAAAATCGCAACGAGA
2436582 GAATCGCAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.48, C:0.18, G:0.20, T:0.13
Consensus pattern (20 bp):
AAATGAAAATCGCAACGAGA
Found at i:2436589 original size:14 final size:14
Alignment explanation
Indices: 2436570--2436625 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
2436560 GAAAATGACT
2436570 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
2436584 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
2436601 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
2436617 ATCGCAACG
1 ATCGCAACG
2436626 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 6 0.17
19 7 0.20
ACGTcount: A:0.39, C:0.25, G:0.25, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:2436604 original size:33 final size:33
Alignment explanation
Indices: 2436549--2436642 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
2436539 AGATAATGAA
2436549 AATCGCAACGCGAAAATGACTATCGCAACGAGAG
1 AATCGCAACGCG-AAATGACTATCGCAACGAGAG
2436583 AATCGCAACGCGAAATGACTATCGCAACGAGAG
1 AATCGCAACGCGAAATGACTATCGCAACGAGAG
**
2436616 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGACTATCGCAA
2436643 TGCGATTTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 46 0.79
34 12 0.21
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGACTATCGCAACGAGAG
Found at i:2436691 original size:33 final size:32
Alignment explanation
Indices: 2436643--2436735 Score: 123
Period size: 33 Copynumber: 2.8 Consensus size: 32
2436633 AAAATCGCAA
*
2436643 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTT-ATTTCGCGTTGCGATTATCTCGT
*
2436676 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTT-ATTTCGCGTTGCGATTATCTCGT
*
2436709 TGCGATAGTTATTTCCGCGTTGCGATT
1 TGCGAT-TTTATTT-CGCGTTGCGATT
2436736 TTCATTCTGG
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
33 40 0.74
34 14 0.26
ACGTcount: A:0.11, C:0.20, G:0.25, T:0.44
Consensus pattern (32 bp):
TGCGATTTTATTTCGCGTTGCGATTATCTCGT
Found at i:2436697 original size:19 final size:19
Alignment explanation
Indices: 2436673--2436741 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 19
2436663 GCGATTATCT
2436673 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
2436692 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
*
2436706 CGTTGCGATAGTT-ATTTCCG
1 CGTTGCGAT-TTTCATTT-CG
2436726 CGTTGCGATTTTCATT
1 CGTTGCGATTTTCATT
2436742 CTGGAAACTA
Statistics
Matches: 39, Mismatches: 3, Indels: 15
0.68 0.05 0.26
Matches are distributed among these distances:
14 10 0.26
17 5 0.13
19 11 0.28
20 13 0.33
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:2437301 original size:20 final size:20
Alignment explanation
Indices: 2437276--2437385 Score: 71
Period size: 20 Copynumber: 5.5 Consensus size: 20
2437266 GCATTGCGAA
2437276 GCATTGCGATAGTAAG-ATTC
1 GCATTGCGAT-GTAAGTATTC
* *
2437296 GCATTGCGATTTACGTATTC
1 GCATTGCGATGTAAGTATTC
* ***
2437316 GCATTGCGATTTTCCTAATTC
1 GCATTGCGATGTAAGT-ATTC
* ** *
2437337 GCATTGCGATTTACTTAATC
1 GCATTGCGATGTAAGTATTC
* *
2437357 GCGTTGCGATTTACA-TATTC
1 GCATTGCGATGTA-AGTATTC
2437377 GCATTGCGA
1 GCATTGCGA
2437386 ATTATGAAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
19 3 0.04
20 55 0.72
21 18 0.24
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (20 bp):
GCATTGCGATGTAAGTATTC
Found at i:2437342 original size:41 final size:40
Alignment explanation
Indices: 2437292--2437528 Score: 147
Period size: 41 Copynumber: 5.8 Consensus size: 40
2437282 CGATAGTAAG
* * *
2437292 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACAT
* *
2437332 AATTCGCATTGCGATTTACTTAATCGCGTTGCGATTTACAT
1 -ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACAT
* * * ** * *
2437373 ATTCGCATTGCGAATTATGAAAATCGCAACGCGA-ATACGT
1 ATTCGCATTGCGATTTACG-TAATCGCATTGCGATTTACAT
* * * * * * * *
2437413 AAATCGCAATGCGAATTAGGAAAATTGCATTGTGATAGT-CAGT
1 -ATTCGCATTGCGATTTACG-TAATCGCATTGCGAT-TTACA-T
* ** *
2437456 A-TCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACTT
1 ATTCGCATTGCGATTTACGTAA-TCGCATTGCGATTTACAT
* * *
2437496 ATTCGCATTGCGAATTACTTATTCGCATTGCGA
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGA
2437529 ATTGTGAAAA
Statistics
Matches: 151, Mismatches: 37, Indels: 17
0.74 0.18 0.08
Matches are distributed among these distances:
40 37 0.25
41 110 0.73
42 2 0.01
43 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACAT
Found at i:2437529 original size:20 final size:20
Alignment explanation
Indices: 2437292--2437531 Score: 118
Period size: 20 Copynumber: 11.8 Consensus size: 20
2437282 CGATAGTAAG
*
2437292 ATTCGCATTGCGATTTACGT-
1 ATTCGCATTGCGAATTAC-TA
* *
2437312 ATTCGCATTGCGATTTTCCTA
1 ATTCGCATTGCGA-ATTACTA
*
2437333 ATTCGCATTGCGATTTACTTA
1 ATTCGCATTGCGAATTAC-TA
* *
2437354 A-TCGCGTTGCGATTTAC-A
1 ATTCGCATTGCGAATTACTA
2437372 TATTCGCATTGCGAATTA-TGAA
1 -ATTCGCATTGCGAATTACT--A
* **
2437394 AATCGCAACGCGAA-TACGTA
1 ATTCGCATTGCGAATTAC-TA
* * **
2437414 AATCGCAATGCGAATTAGGAAA
1 ATTCGCATTGCGAATTA--CTA
* *
2437436 ATT-GCATTGTG-A-TAGTCA
1 ATTCGCATTGCGAATTACT-A
* * * *
2437454 GTATCGCATTGCGATTTTCCAA
1 AT-TCGCATTGCGA-ATTACTA
* *
2437476 ATTCGCATTGCGATTTACTT
1 ATTCGCATTGCGAATTACTA
*
2437496 ATTCGCATTGCGAATTACTT
1 ATTCGCATTGCGAATTACTA
2437516 ATTCGCATTGCGAATT
1 ATTCGCATTGCGAATT
2437532 GTGAAAATCG
Statistics
Matches: 174, Mismatches: 27, Indels: 38
0.73 0.11 0.16
Matches are distributed among these distances:
18 3 0.02
19 4 0.02
20 109 0.63
21 50 0.29
22 7 0.04
23 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (20 bp):
ATTCGCATTGCGAATTACTA
Found at i:2437570 original size:21 final size:22
Alignment explanation
Indices: 2437518--2437570 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
2437508 AATTACTTAT
2437518 TCGCATTGCG-AATTGTGAAAA
1 TCGCATTGCGAAATTGTGAAAA
**
2437539 TCGCAACGCGAAATTG-GAAAA
1 TCGCATTGCGAAATTGTGAAAA
2437560 TCGCATTGCGA
1 TCGCATTGCGA
2437571 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (22 bp):
TCGCATTGCGAAATTGTGAAAA
Found at i:2438570 original size:36 final size:37
Alignment explanation
Indices: 2438498--2438571 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
2438488 TTTGAAAAAT
* *
2438498 ATTTATATATATTTTTTTAAAAATTTAAATTCATAAA
1 ATTTATATATATTTTTTTAAAAATTGAAAATCATAAA
2438535 ATTTATATA-ATTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATATATATTTTTTTA-AAAATTGAAAATCATAAA
2438571 A
1 A
2438572 AGGTTTAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 15 0.44
37 19 0.56
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATATTTTTTTAAAAATTGAAAATCATAAA
Found at i:2438913 original size:22 final size:22
Alignment explanation
Indices: 2438886--2438927 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
2438876 CAACCAAACG
2438886 GGGGAATGTGGATTACATTCCC
1 GGGGAATGTGGATTACATTCCC
*
2438908 GGGGAATGTGGATTCCATTC
1 GGGGAATGTGGATTACATTC
2438928 TCATGGGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (22 bp):
GGGGAATGTGGATTACATTCCC
Found at i:2440265 original size:14 final size:14
Alignment explanation
Indices: 2440246--2440273 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2440236 ACTAAATTGA
2440246 ACAAATATAAAATT
1 ACAAATATAAAATT
2440260 ACAAATATAAAATT
1 ACAAATATAAAATT
2440274 TAAATACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (14 bp):
ACAAATATAAAATT
Found at i:2440517 original size:8 final size:8
Alignment explanation
Indices: 2440495--2440546 Score: 53
Period size: 8 Copynumber: 7.1 Consensus size: 8
2440485 TAGTTTATAG
2440495 TATAA-TA
1 TATAAGTA
2440502 TA-AAGTA
1 TATAAGTA
2440509 TATAAGTA
1 TATAAGTA
2440517 T-TAAAGTA
1 TAT-AAGTA
2440525 TATAA--A
1 TATAAGTA
2440531 TATAAGTA
1 TATAAGTA
2440539 T-TAAGTA
1 TATAAGTA
2440546 T
1 T
2440547 TAAATTATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
6 8 0.21
7 14 0.36
8 16 0.41
9 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (8 bp):
TATAAGTA
Found at i:2440536 original size:22 final size:20
Alignment explanation
Indices: 2440508--2440556 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 20
2440498 AATATAAAGT
2440508 ATATAAGTATTAAAGTATATAA
1 ATATAAGTATT-AAGTAT-TAA
2440530 ATATAAGTATTAAGTATTAA
1 ATATAAGTATTAAGTATTAA
2440550 ATTATAA
1 A-TATAA
2440557 AATTCGTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.15
21 11 0.42
22 11 0.42
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (20 bp):
ATATAAGTATTAAGTATTAA
Found at i:2440550 original size:29 final size:30
Alignment explanation
Indices: 2440498--2440559 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
2440488 TTTATAGTAT
2440498 AATATAAAGTATATAAGTATTAAAGTATATA
1 AATATAAAGTATATAAGTATTAAAGTATA-A
*
2440529 AATAT-AAGTAT-TAAGTATTAAATTATAA
1 AATATAAAGTATATAAGTATTAAAGTATAA
2440557 AAT
1 AAT
2440560 TCGTAGGATC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 4 0.13
29 15 0.50
30 6 0.20
31 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (30 bp):
AATATAAAGTATATAAGTATTAAAGTATAA
Found at i:2440774 original size:21 final size:19
Alignment explanation
Indices: 2440725--2440776 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
2440715 ATTTTTGCTC
2440725 TCTCTCTAGAATT-TCGTT
1 TCTCTCTAGAATTCTCGTT
*
2440743 TCTCTC-A-AATTCTATGTCT
1 TCTCTCTAGAATTCT-CGT-T
2440762 TCTCTCTAGAATTCT
1 TCTCTCTAGAATTCT
2440777 TAGCCACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 4 0.14
17 2 0.07
18 8 0.29
19 7 0.25
20 1 0.04
21 6 0.21
ACGTcount: A:0.19, C:0.25, G:0.08, T:0.48
Consensus pattern (19 bp):
TCTCTCTAGAATTCTCGTT
Found at i:2443526 original size:21 final size:22
Alignment explanation
Indices: 2443502--2443544 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
2443492 CAGAATTTAA
2443502 TATTCAATTTT-TAATTTATTG
1 TATTCAATTTTATAATTTATTG
*
2443523 TATTCTATTTTCATAATTTATT
1 TATTCAATTTT-ATAATTTATT
2443545 AATTTTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
23 9 0.47
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (22 bp):
TATTCAATTTTATAATTTATTG
Found at i:2444766 original size:2 final size:2
Alignment explanation
Indices: 2444759--2444785 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2444749 TTTCATCTTT
2444759 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2444786 TAAAATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2446612 original size:45 final size:44
Alignment explanation
Indices: 2446556--2446744 Score: 227
Period size: 45 Copynumber: 4.2 Consensus size: 44
2446546 AATCCTTTCA
* * *
2446556 ATTATTGGGTTGCCGAAATTAAAATCAAATGATTAGTTCCTTTCG
1 ATTATTGGGTTG-CGAAATTAAAATCAAATGATCAATTCCTTTTG
* * *
2446601 ATTACTAGGTTGCAAAAATTAAAATC-AATGGATCAATTCCTTTTG
1 ATTATTGGGTTGC-GAAATTAAAATCAAAT-GATCAATTCCTTTTG
* * *
2446646 ATTATTGAGTTGCGAAAATTAAAAGTAAAATGATTAATTCCTTTTG
1 ATTATTGGGTTGCG-AAATTAAAA-TCAAATGATCAATTCCTTTTG
*
2446692 ATTATTGGGTTGCGAAATCTAAAATCAAAGGATCAATTCCTTTTG
1 ATTATTGGGTTGCGAAAT-TAAAATCAAATGATCAATTCCTTTTG
2446737 ATTATTGG
1 ATTATTGG
2446745 ATTACTAAAA
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
44 4 0.03
45 82 0.67
46 33 0.27
47 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (44 bp):
ATTATTGGGTTGCGAAATTAAAATCAAATGATCAATTCCTTTTG
Found at i:2446704 original size:91 final size:90
Alignment explanation
Indices: 2446556--2446743 Score: 263
Period size: 91 Copynumber: 2.1 Consensus size: 90
2446546 AATCCTTTCA
* * *
2446556 ATTATTGGGTTGCCGAAATTAAAATCAAATGATTAGTTCCTTTCGATTACTAGGTTGCAAAAAT-
1 ATTATTGAGTTGCCGAAATTAAAATAAAATGATTAATTCCTTTCGATTACTAGGTTGC-AAAATC
*
2446620 TAAAATCAATGGATCAATTCCTTTTG
65 TAAAATCAAAGGATCAATTCCTTTTG
* * * *
2446646 ATTATTGAGTTG-CGAAAATTAAAAGTAAAATGATTAATTCCTTTTGATTATTGGGTTGCGAAAT
1 ATTATTGAGTTGCCG-AAATTAAAA-TAAAATGATTAATTCCTTTCGATTACTAGGTTGCAAAAT
2446710 CTAAAATCAAAGGATCAATTCCTTTTG
64 CTAAAATCAAAGGATCAATTCCTTTTG
2446737 ATTATTG
1 ATTATTG
2446744 GATTACTAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
89 2 0.02
90 24 0.28
91 61 0.70
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (90 bp):
ATTATTGAGTTGCCGAAATTAAAATAAAATGATTAATTCCTTTCGATTACTAGGTTGCAAAATCT
AAAATCAAAGGATCAATTCCTTTTG
Found at i:2447005 original size:45 final size:46
Alignment explanation
Indices: 2446941--2447104 Score: 192
Period size: 45 Copynumber: 3.6 Consensus size: 46
2446931 ACCTTAACAA
*
2446941 GGATTAGTTCCTTTTGATTACTAGGTTGC-ATAAATAAAAATTAAG
1 GGATTAGTTCCTTTTGATTATTAGGTTGCGATAAATAAAAATTAAG
* * **
2446986 GGATTAGTTCCTTTTGATTATTAAGTTGCGAAAAATAAAAGCTAA-
1 GGATTAGTTCCTTTTGATTATTAGGTTGCGATAAATAAAAATTAAG
* * * *
2447031 TGATTAGTTCCTTTTGATTATTGGGTTGCGA-AAATTAAAATCATAG
1 GGATTAGTTCCTTTTGATTATTAGGTTGCGATAAATAAAAATTA-AG
* *
2447077 GG-TCAGTTCCTTTTGATTATTAGATTGC
1 GGATTAGTTCCTTTTGATTATTAGGTTGC
2447105 TAAATTAAAG
Statistics
Matches: 100, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
44 8 0.08
45 79 0.79
46 13 0.13
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (46 bp):
GGATTAGTTCCTTTTGATTATTAGGTTGCGATAAATAAAAATTAAG
Found at i:2447345 original size:58 final size:57
Alignment explanation
Indices: 2447277--2447621 Score: 325
Period size: 58 Copynumber: 6.0 Consensus size: 57
2447267 AATCTTACGG
2447277 TGATTCTAACTTTGTAAGGAAAATAAAATTTTGAATTTATTTCCTTGAGAATCTTGAA
1 TGATTCTAACTTTGTAAGGAAAAT-AAATTTTGAATTTATTTCCTTGAGAATCTTGAA
* * *
2447335 TGATTATAACTTTTTAAGG-AAATAAATTGTTGAATTTATTTTATTTCCTTGAGAATCTTAAA
1 TGATTCTAACTTTGTAAGGAAAATAAATT-TTG-A---A-TTTATTTCCTTGAGAATCTTGAA
* * * **
2447397 TGATTTTAA-TTTGGTAAGGAAAATAAATGGTTAAATTTATTTAATTGAGAATCTTGAA
1 TGATTCTAACTTT-GTAAGGAAAATAAAT-TTTGAATTTATTTCCTTGAGAATCTTGAA
* *
2447455 TGGTTCTAATTTTGTAAGGAAAAATAAA--TTG-A--T-TTT-CTTGAGAATCTTGAA
1 TGATTCTAACTTTGTAAGG-AAAATAAATTTTGAATTTATTTCCTTGAGAATCTTGAA
* **
2447506 TGATTCTAACTTTGTAAGGAAAATATATAGCTGAATTTATTTCCTTGAGAATCTTGAA
1 TGATTCTAACTTTGTAAGGAAAATAAAT-TTTGAATTTATTTCCTTGAGAATCTTGAA
* * ** *
2447564 TGATTCT-ATTTTATAAAAATAAATAAATTGTTGAATTTATTTTCTT-AGAAATCTTGAA
1 TGATTCTAACTTTGTAAGGA-AAATAAATT-TTGAATTTATTTCCTTGAG-AATCTTGAA
2447622 ATATCCTATT
Statistics
Matches: 239, Mismatches: 26, Indels: 44
0.77 0.08 0.14
Matches are distributed among these distances:
50 7 0.03
51 31 0.13
52 3 0.01
53 3 0.01
54 1 0.00
55 1 0.00
56 8 0.03
57 20 0.08
58 103 0.43
59 12 0.05
61 4 0.02
62 36 0.15
63 10 0.04
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (57 bp):
TGATTCTAACTTTGTAAGGAAAATAAATTTTGAATTTATTTCCTTGAGAATCTTGAA
Found at i:2447393 original size:62 final size:63
Alignment explanation
Indices: 2447312--2447483 Score: 187
Period size: 62 Copynumber: 2.8 Consensus size: 63
2447302 AAATTTTGAA
* * * *
2447312 TTTATTTCCTTGAGAATCTTGAATGATTATAACTTT-TTAAGG-AAATAAATTGTTGAATTTAT
1 TTTATTTCCTTGAGAATCTTAAATGATTATAA-TTTGGTAAGGAAAATAAATGGTTAAATTTAT
*
2447374 TTTATTTCCTTGAGAATCTTAAATGATTTTAATTTGGTAAGGAAAATAAATGGTTAAATTTA-
1 TTTATTTCCTTGAGAATCTTAAATGATTATAATTTGGTAAGGAAAATAAATGGTTAAATTTAT
* * * * *
2447436 TTTA----ATTGAGAATCTTGAATGGTTCTAATTTTGTAAGGAAAAATAAAT
1 TTTATTTCCTTGAGAATCTTAAATGATTATAATTTGGTAAGG-AAAATAAAT
2447484 TGATTTTCTT
Statistics
Matches: 97, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
58 29 0.30
59 9 0.09
61 3 0.03
62 39 0.40
63 17 0.18
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (63 bp):
TTTATTTCCTTGAGAATCTTAAATGATTATAATTTGGTAAGGAAAATAAATGGTTAAATTTAT
Found at i:2447699 original size:40 final size:40
Alignment explanation
Indices: 2447654--2447875 Score: 238
Period size: 40 Copynumber: 5.6 Consensus size: 40
2447644 ATCAATCATC
* * *
2447654 AGATTTATTTACCTATTTTGTAAAAAGGAAATAAATATTT
1 AGATTTATTTTCCTGTTTTGTAAAAAGGAAATAAATAGTT
* * * *
2447694 GGATTTATTTTCCT-ATTTGT-AAAAGGAAATAAATCGGT
1 AGATTTATTTTCCTGTTTTGTAAAAAGGAAATAAATAGTT
* *
2447732 AGATTTTATTTTCCGGTTTTCTAAAAAGGAAATAAATAGTT
1 AGA-TTTATTTTCCTGTTTTGTAAAAAGGAAATAAATAGTT
* * * *
2447773 AGATTTGTTTTCCTG-TTTGGAGAAA-GAAAGAAATAGTT
1 AGATTTATTTTCCTGTTTTGTAAAAAGGAAATAAATAGTT
* * * *
2447811 GGATTTATTTTTCTTGTTTTGT-AAAAGTAAATAAATCGTT
1 AGATTTA-TTTTCCTGTTTTGTAAAAAGGAAATAAATAGTT
2447851 AGATTTATTTTCCTGTTTTGTAAAA
1 AGATTTATTTTCCTGTTTTGTAAAA
2447876 GAAATTGTTT
Statistics
Matches: 147, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
38 34 0.23
39 45 0.31
40 49 0.33
41 19 0.13
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (40 bp):
AGATTTATTTTCCTGTTTTGTAAAAAGGAAATAAATAGTT
Found at i:2447742 original size:79 final size:77
Alignment explanation
Indices: 2447625--2447880 Score: 255
Period size: 79 Copynumber: 3.2 Consensus size: 77
2447615 TCTTGAAATA
* * *
2447625 TCCTATTATGTAAAAGAAAATCAATC-ATCAGATTTATTTACCTATTTTGTAAAAAGGAAATAAA
1 TCCTATT-TGTAAAAG-AAATAAATCGAT-AGATTTATTTTCCTGTTTTGTAAAAAGGAAATAAA
* *
2447689 TATTTGGATTTATTT
63 TAGTTAGATTTATTT
* * *
2447704 TCCTATTTGTAAAAGGAAATAAATCGGTAGATTTTATTTTCCGGTTTTCTAAAAAGGAAATAAAT
1 TCCTATTTGTAAAA-GAAATAAATCGATAGA-TTTATTTTCCTGTTTTGTAAAAAGGAAATAAAT
*
2447769 AGTTAGATTTGTTT
64 AGTTAGATTTATTT
* * * * * * * *
2447783 TCCTGTTTGGAGAAAGAAAGAAATAGTTGGATTTATTTTTCTTGTTTTGT-AAAAGTAAATAAAT
1 TCCTATTTGTA-AAAGAAATAAATCGATAGATTTA-TTTTCCTGTTTTGTAAAAAGGAAATAAAT
*
2447847 CGTTAGATTTATTT
64 AGTTAGATTTATTT
*
2447861 TCCTGTTTTGTAAAAGAAAT
1 TCCT-ATTTGTAAAAGAAAT
2447881 TGTTTTGTAA
Statistics
Matches: 147, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
78 58 0.39
79 86 0.59
80 3 0.02
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.41
Consensus pattern (77 bp):
TCCTATTTGTAAAAGAAATAAATCGATAGATTTATTTTCCTGTTTTGTAAAAAGGAAATAAATAG
TTAGATTTATTT
Found at i:2447886 original size:17 final size:18
Alignment explanation
Indices: 2447864--2447898 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
2447854 TTTATTTTCC
2447864 TGTTTTGTAAAA-GAAAT
1 TGTTTTGTAAAAGGAAAT
2447881 TGTTTTGTAAAAGGAAAT
1 TGTTTTGTAAAAGGAAAT
2447899 AAATCGTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (18 bp):
TGTTTTGTAAAAGGAAAT
Found at i:2447910 original size:56 final size:57
Alignment explanation
Indices: 2447824--2447937 Score: 185
Period size: 56 Copynumber: 2.0 Consensus size: 57
2447814 TTTATTTTTC
* *
2447824 TTGTTTTGTAAAAGTAAATAAATCGTTAGATTTATTTTCCTGTTTTGTA-AAAGAAA
1 TTGTTTTGTAAAAGGAAATAAATCGTTAGATTTATTTTACTGTTTTGTAGAAAGAAA
* *
2447880 TTGTTTTGTAAAAGGAAATAAATCGTTAGATTTATTTTACTTTTTTGTAGAAGGAAA
1 TTGTTTTGTAAAAGGAAATAAATCGTTAGATTTATTTTACTGTTTTGTAGAAAGAAA
2447937 T
1 T
2447938 AAATCATTGA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
56 46 0.87
57 7 0.13
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.45
Consensus pattern (57 bp):
TTGTTTTGTAAAAGGAAATAAATCGTTAGATTTATTTTACTGTTTTGTAGAAAGAAA
Found at i:2447952 original size:39 final size:40
Alignment explanation
Indices: 2447883--2448057 Score: 137
Period size: 39 Copynumber: 4.5 Consensus size: 40
2447873 AAAGAAATTG
*
2447883 TTTTGTAAAAGGAAATAAATCGTT-AGATTTATTTTACTT-
1 TTTTGTAAAAGGAAATAAATCATTGA-ATTTATTTTACTTA
* *
2447922 TTTTGTAGAAGGAAATAAATCATTGAATTTATCTTA-TTA
1 TTTTGTAAAAGGAAATAAATCATTGAATTTATTTTACTTA
* * ** ** *
2447961 TTTTGCAAAAGTAAAT-ACCCATTGGTTTTATTTTTC-TA
1 TTTTGTAAAAGGAAATAAATCATTGAATTTATTTTACTTA
* * * * * * *
2447999 TTTTATAAGAGGAGATAAATCGTTGGATTTAATTT-CTTG
1 TTTTGTAAAAGGAAATAAATCATTGAATTTATTTTACTTA
*
2448038 TTTTGTAAAAGAAAATAAAT
1 TTTTGTAAAAGGAAATAAAT
2448058 TGTTGGATAT
Statistics
Matches: 104, Mismatches: 27, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
38 29 0.28
39 74 0.71
40 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (40 bp):
TTTTGTAAAAGGAAATAAATCATTGAATTTATTTTACTTA
Found at i:2447965 original size:95 final size:97
Alignment explanation
Indices: 2447798--2447976 Score: 220
Period size: 95 Copynumber: 1.9 Consensus size: 97
2447788 TTTGGAGAAA
* * * * * *
2447798 GAAAGAAATAGTTGGATTTATTTTTCTTGTTTTGTAAAAGTAAATAAATCGTTAGATTTATTTTC
1 GAAAGAAATAGTTAGATTTATTTTACTTGTTTTGTAAAAGGAAATAAATCATTAGATTTATCTTA
* *
2447863 CTGTTTTGTAAAAG-AAATTGTTTTGTAAAAG
66 CTATTTTGCAAAAGTAAATTGTTTTGTAAAAG
* * *
2447894 GAAATAAATCGTTAGATTTATTTTACTT-TTTTGTAGAAGGAAATAAATCATT-GAATTTATCTT
1 GAAAGAAATAGTTAGATTTATTTTACTTGTTTTGTAAAAGGAAATAAATCATTAG-ATTTATCTT
*
2447957 ATTATTTTGCAAAAGTAAAT
65 ACTATTTTGCAAAAGTAAAT
2447977 ACCCATTGGT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
94 1 0.01
95 40 0.58
96 28 0.41
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (97 bp):
GAAAGAAATAGTTAGATTTATTTTACTTGTTTTGTAAAAGGAAATAAATCATTAGATTTATCTTA
CTATTTTGCAAAAGTAAATTGTTTTGTAAAAG
Found at i:2448510 original size:20 final size:19
Alignment explanation
Indices: 2448454--2448523 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
2448444 AAAATGTTTT
*
2448454 TATGAATAGTATTG-TACTG
1 TATGAATAGTA-TGATATTG
* *
2448473 CATGAATAGTATCAATATTG
1 TATGAATAGTAT-GATATTG
2448493 TATGAATAGTACTGATATTG
1 TATGAATAGTA-TGATATTG
* *
2448513 TGTGAACAGTA
1 TATGAATAGTA
2448524 ATAAACAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
18 1 0.02
19 10 0.24
20 29 0.71
21 1 0.02
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (19 bp):
TATGAATAGTATGATATTG
Found at i:2449000 original size:35 final size:35
Alignment explanation
Indices: 2448960--2449033 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
2448950 TCTTTTGTAA
2448960 AGGGGTTTTGGTTCTAGCTGAGCCTATTAAAAGCT
1 AGGGGTTTTGGTTCTAGCTGAGCCTATTAAAAGCT
*
2448995 AGGGGTTTTGGTTCTAGCTGAGTCTATTAAAAGCT
1 AGGGGTTTTGGTTCTAGCTGAGCCTATTAAAAGCT
2449030 AGGG
1 AGGG
2449034 ATTGGTTCTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.23, C:0.12, G:0.31, T:0.34
Consensus pattern (35 bp):
AGGGGTTTTGGTTCTAGCTGAGCCTATTAAAAGCT
Found at i:2449044 original size:33 final size:35
Alignment explanation
Indices: 2448960--2449044 Score: 129
Period size: 35 Copynumber: 2.5 Consensus size: 35
2448950 TCTTTTGTAA
*
2448960 AGGGGTTTTGGTTCTAGCTGAGCCTATTAAAAGCT
1 AGGGGTATTGGTTCTAGCTGAGCCTATTAAAAGCT
* *
2448995 AGGGGTTTTGGTTCTAGCTGAGTCTATTAAAAGCT
1 AGGGGTATTGGTTCTAGCTGAGCCTATTAAAAGCT
2449030 A-GGG-ATTGGTTCTAG
1 AGGGGTATTGGTTCTAG
2449045 TTTAGCCATT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
33 10 0.21
34 3 0.06
35 35 0.73
ACGTcount: A:0.22, C:0.12, G:0.31, T:0.35
Consensus pattern (35 bp):
AGGGGTATTGGTTCTAGCTGAGCCTATTAAAAGCT
Done.