Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_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: 9057482
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 37
Found at i:4855050 original size:20 final size:20
Alignment explanation
Indices: 4855025--4855119 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
4855015 AATTGGGAAA
*
4855025 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
4855045 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
4855066 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
4855086 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
4855106 TTTGCAACGCGATA
1 ATCGCAACGCGATA
4855120 ATACATAATC
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
20 46 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:4855335 original size:22 final size:22
Alignment explanation
Indices: 4855307--4855350 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4855297 CACTCTCTCA
4855307 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
4855329 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
4855351 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:4855640 original size:20 final size:20
Alignment explanation
Indices: 4855615--4855652 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4855605 CGATTCTCTC
4855615 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
4855635 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
4855653 AGAAACTATT
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:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:4856998 original size:18 final size:18
Alignment explanation
Indices: 4856972--4857016 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
4856962 TCCACTTCGG
*
4856972 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
4856990 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
4857008 GAGCCATCA
1 GAGCCATCA
4857017 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:4857552 original size:19 final size:20
Alignment explanation
Indices: 4857498--4857564 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
4857488 TAGTTTACTT
* *
4857498 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
4857518 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
4857538 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
4857557 TCGCAACG
1 TCGCAACG
4857565 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:4857572 original size:14 final size:14
Alignment explanation
Indices: 4857553--4857610 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
4857543 ATGCGAAATG
4857553 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
4857567 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
4857583 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
4857599 AAAATCGCAACG
1 AAAATCGCAACG
4857611 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:4857595 original size:32 final size:33
Alignment explanation
Indices: 4857537--4857627 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
4857527 GGAAATGGCT
*
4857537 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
4857570 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
4857602 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
4857628 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:4857621 original size:19 final size:19
Alignment explanation
Indices: 4857498--4857632 Score: 85
Period size: 19 Copynumber: 7.6 Consensus size: 19
4857488 TAGTTTACTT
* **
4857498 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
4857518 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
4857538 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4857557 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
4857571 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
4857589 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
4857603 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4857622 TCGCAATGCGA
1 TCGCAACGCGA
4857633 TTTGTGTTTC
Statistics
Matches: 92, Mismatches: 11, Indels: 25
0.72 0.09 0.20
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 27 0.29
20 24 0.26
21 1 0.01
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:4857663 original size:14 final size:14
Alignment explanation
Indices: 4857644--4857701 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
4857634 TTGTGTTTCG
4857644 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
4857658 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
4857674 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
4857690 CGTTGCGATTTT
1 CGTTGCGATTTT
4857702 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:4857678 original size:32 final size:33
Alignment explanation
Indices: 4857639--4857717 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
4857629 GCGATTTGTG
4857639 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
4857671 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
4857704 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
4857718 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:4857716 original size:19 final size:19
Alignment explanation
Indices: 4857658--4857775 Score: 86
Period size: 20 Copynumber: 6.4 Consensus size: 19
4857648 GCGATTTTGT
4857658 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
4857676 CGTTGCGA-TTT--TGT--
1 CGTTGCGATTTTCATTTCG
4857690 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
4857709 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
4857729 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
* *
4857748 CGTTGCGAATTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
4857768 TGTTGCGA
1 CGTTGCGA
4857776 AAGTAAACTA
Statistics
Matches: 80, Mismatches: 13, Indels: 12
0.76 0.12 0.11
Matches are distributed among these distances:
14 8 0.10
15 3 0.04
16 2 0.03
17 2 0.03
18 11 0.14
19 25 0.31
20 29 0.36
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.41
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:4857853 original size:27 final size:26
Alignment explanation
Indices: 4857791--4857855 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
4857781 AACTATTCTT
*
4857791 CTTCTGGAATGTTTATATATGTTGTC
1 CTTCTGGAATGTTTATATATGTTGTA
**
4857817 CTT-TTAAATGTTTATATAAGTGTT-TA
1 CTTCTGGAATGTTTATAT-A-TGTTGTA
4857843 CTTCTGGAATGTT
1 CTTCTGGAATGTT
4857856 ATCTGAGCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
25 12 0.39
26 8 0.26
27 11 0.35
ACGTcount: A:0.23, C:0.09, G:0.17, T:0.51
Consensus pattern (26 bp):
CTTCTGGAATGTTTATATATGTTGTA
Found at i:4860089 original size:19 final size:19
Alignment explanation
Indices: 4860067--4860197 Score: 85
Period size: 19 Copynumber: 7.7 Consensus size: 19
4860057 GGAAATTACT
*
4860067 ATCGCAATGTGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4860086 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
4860100 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
4860119 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
4860133 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
4860152 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
4860166 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4860185 ATCGCAACGCGAA
1 ATCGCAATGCGAA
4860198 TTTAATTTCG
Statistics
Matches: 83, Mismatches: 14, Indels: 30
0.65 0.11 0.24
Matches are distributed among these distances:
14 27 0.33
15 3 0.04
16 6 0.07
17 5 0.06
18 3 0.04
19 39 0.47
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:4860104 original size:33 final size:33
Alignment explanation
Indices: 4860067--4860193 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
4860057 GGAAATTACT
*
4860067 ATCGCAATGTGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
4860100 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
4860132 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
4860166 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
4860194 CGAATTTAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
32 1 0.01
33 82 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:4860174 original size:66 final size:66
Alignment explanation
Indices: 4860068--4860200 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
4860058 GAAATTACTA
* *
4860068 TCGCAATGTGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
4860133 T
66 T
*
4860134 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
4860199 T
66 T
4860200 T
1 T
4860201 AATTTCGCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:4860215 original size:19 final size:19
Alignment explanation
Indices: 4860193--4860234 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4860183 AAATCGCAAC
*
4860193 GCGAATTTAATTTCGCGTT
1 GCGAATTTAATTTCGCATT
* *
4860212 GCGATTTTCATTTCGCATT
1 GCGAATTTAATTTCGCATT
4860231 GCGA
1 GCGA
4860235 TTCCCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.40
Consensus pattern (19 bp):
GCGAATTTAATTTCGCATT
Found at i:4860235 original size:19 final size:19
Alignment explanation
Indices: 4860202--4860268 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
4860192 CGCGAATTTA
*
4860202 ATTTCGCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
4860221 ATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGATTTTC
**
4860238 -CCTCG--TTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
4860254 ATTTCGCATTGCGAT
1 ATTTCGCATTGCGAT
4860269 AGTACTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
14 6 0.16
16 6 0.16
17 6 0.16
19 20 0.53
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.43
Consensus pattern (19 bp):
ATTTCGCATTGCGATTTTC
Found at i:4860394 original size:14 final size:14
Alignment explanation
Indices: 4860375--4860411 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4860365 CATCAATTAA
4860375 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4860389 ACAAATCACCTTTT
1 ACAAATCAACTTTT
4860403 ACAAATCAA
1 ACAAATCAA
4860412 TTAAACAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:4861839 original size:21 final size:21
Alignment explanation
Indices: 4861773--4861839 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
4861763 GTGAATCGGG
*
4861773 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
4861793 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
4861815 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
4861836 CTCT
1 CTCT
4861840 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:4861858 original size:42 final size:41
Alignment explanation
Indices: 4861773--4861895 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
4861763 GTGAATCGGG
* * * * *
4861773 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
4861815 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
4861857 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
4861896 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:4863976 original size:33 final size:33
Alignment explanation
Indices: 4863919--4864016 Score: 142
Period size: 33 Copynumber: 2.9 Consensus size: 33
4863909 ACGAGATAAT
*
4863919 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
4863953 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
4863986 GACAATCGCAACGCGAAATGAAAATCGCAAC
1 GAGAATCGCAACGCGAAATGACTATCGCAAC
4864017 TGCGAAATAA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 44 0.76
34 14 0.24
ACGTcount: A:0.40, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:4864011 original size:19 final size:19
Alignment explanation
Indices: 4863894--4864078 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
4863884 TCTTTTGGTT
*
4863894 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
4863913 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
4863933 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
4863951 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
4863967 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
4863985 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
4864000 GAAATGAAAATCGCAACTGC
1 GAAATGAAAATCGCAAC-GC
*
4864020 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
4864039 GAAATGAAAATCGTAACGC
1 GAAATGAAAATCGCAACGC
*
4864058 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
4864077 GA
1 GA
4864079 TTTTGGTTTC
Statistics
Matches: 136, Mismatches: 17, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 60 0.44
20 45 0.33
21 2 0.01
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:4864043 original size:39 final size:38
Alignment explanation
Indices: 4863989--4864078 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 38
4863979 GCGACCAGAC
4863989 AATCGCAACGCGAAATGAAAATCGCAACTGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAAC-GCGAAATAAA
* *
4864028 AATCGCAACGCGAAATGAAAATCGTAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
4864066 AATCGCAATGCGA
1 AATCGCAACGCGA
4864079 TTTTGGTTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 21 0.44
39 27 0.56
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:4864096 original size:19 final size:19
Alignment explanation
Indices: 4864074--4864137 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
4864064 AAAATCGCAA
*
4864074 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
4864093 TGCGAATTTTTATTTCGCGT
1 TGCG-ATTTTGATTTCGCGT
*
4864113 TGCGATAGTT-ATTTCCGCGT
1 TGCGAT-TTTGATTT-CGCGT
4864133 TGCGA
1 TGCGA
4864138 GTTGCGATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
19 10 0.26
20 29 0.74
ACGTcount: A:0.12, C:0.17, G:0.27, T:0.44
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:4864108 original size:20 final size:20
Alignment explanation
Indices: 4864085--4864137 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
4864075 GCGATTTTGG
**
4864085 TTTCGCGTTGCGAATTTTTA
1 TTTCGCGTTGCGAATAGTTA
4864105 TTTCGCGTTGCG-ATAGTTA
1 TTTCGCGTTGCGAATAGTTA
4864124 TTTCCGCGTTGCGA
1 TTT-CGCGTTGCGA
4864138 GTTGCGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 8 0.28
20 21 0.72
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (20 bp):
TTTCGCGTTGCGAATAGTTA
Found at i:4864685 original size:20 final size:20
Alignment explanation
Indices: 4864660--4864712 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
4864650 GCGTTATGTA
4864660 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
4864680 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
4864700 TATCTCGTTGCGA
1 AATCGCGTTGCGA
4864713 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:4864746 original size:20 final size:20
Alignment explanation
Indices: 4864721--4864771 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
4864711 GATTTTGTAT
4864721 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
4864741 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
4864761 TATCGCATTGC
1 TATCGCATTGC
4864772 AATTTTCCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:4864777 original size:61 final size:61
Alignment explanation
Indices: 4864661--4864777 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
4864651 CGTTATGTAA
* * * * * *
4864661 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCAATTTTGTATT
* * *
4864722 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCAATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCAATTTT
4864778 CCCAATTCGC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCAATTTTGTATT
Found at i:4864793 original size:61 final size:61
Alignment explanation
Indices: 4864661--4864795 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 61
4864651 CGTTATGTAA
* * * * * * ** *
4864661 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCAATTTTCCAAT
* * *
4864722 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCAATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCAATTTT-CCAAT
4864784 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
4864796 TTACTTATTC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 58 0.97
62 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCAATTTTCCAAT
Found at i:4874969 original size:24 final size:24
Alignment explanation
Indices: 4874942--4874990 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
4874932 TTGATTAAGG
4874942 AGCTTGATAATAAGCTCCTTAATC
1 AGCTTGATAATAAGCTCCTTAATC
4874966 AGCTTGATAATAAGCTCCTTAATC
1 AGCTTGATAATAAGCTCCTTAATC
4874990 A
1 A
4874991 ACGGAAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (24 bp):
AGCTTGATAATAAGCTCCTTAATC
Found at i:4876769 original size:57 final size:57
Alignment explanation
Indices: 4876650--4876908 Score: 254
Period size: 57 Copynumber: 4.5 Consensus size: 57
4876640 CAACTTTGGG
* * *
4876650 GCAAAAAGAACAGGAAAATGCCACATTACGAGAACAATTACGACAGTATGAGGAAAAAAT
1 GCAAAAAGAACAGGAAAATG-C-CA-TACGGGAACAATTACAACAGTATCAGGAAAAAAT
* * * *
4876710 GCAAAATGAACAGGAAAATGCCATAGGGGAACAATTACAACTGTA-CACGGAAAATAT
1 GCAAAAAGAACAGGAAAATGCCATACGGGAACAATTACAACAGTATCA-GGAAAAAAT
* * ** * * *
4876767 GCAAAAA-AAGATGAAAATAAAACATTACGGGAACAATTACAACAGT-GCGAGGCAAAGAT
1 GCAAAAAGAACAGGAAAAT--GCCA-TACGGGAACAATTACAACAGTATC-AGGAAAAAAT
* * *
4876826 GCAAAAAGGACTGGAAAATGCCATACGGGAACAATTACAACAGTATGAGGAAAAAAT
1 GCAAAAAGAACAGGAAAATGCCATACGGGAACAATTACAACAGTATCAGGAAAAAAT
* *
4876883 GCAGAAGGAACAGGAAAATGCCATAC
1 GCAAAAAGAACAGGAAAATGCCATAC
4876909 CAAATGAGCA
Statistics
Matches: 161, Mismatches: 30, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
56 10 0.06
57 83 0.52
58 6 0.04
59 35 0.22
60 27 0.17
ACGTcount: A:0.50, C:0.15, G:0.22, T:0.14
Consensus pattern (57 bp):
GCAAAAAGAACAGGAAAATGCCATACGGGAACAATTACAACAGTATCAGGAAAAAAT
Found at i:4876878 original size:116 final size:116
Alignment explanation
Indices: 4876672--4876885 Score: 295
Period size: 116 Copynumber: 1.8 Consensus size: 116
4876662 GGAAAATGCC
* * * *
4876672 ACATTACGAGAACAATTACGACAGTATGAGGAAAAAATGCAAAATGAACAGGAAAATGCCATAGG
1 ACATTACGAGAACAATTACAACAGTACGAGGAAAAAATGCAAAAAGAACAGGAAAATGCCATACG
* *
4876737 GGAACAATTACAACTGTACACGGAAAATATGCAAAAAAAGATGAAAATAAA
66 GGAACAATTACAACAGTACACGGAAAAAATGCAAAAAAAGATGAAAATAAA
* * * * * *
4876788 ACATTACGGGAACAATTACAACAGTGCGAGGCAAAGATGCAAAAAGGACTGGAAAATGCCATACG
1 ACATTACGAGAACAATTACAACAGTACGAGGAAAAAATGCAAAAAGAACAGGAAAATGCCATACG
*
4876853 GGAACAATTACAACAGTATGA-GGAAAAAATGCA
66 GGAACAATTACAACAGTA-CACGGAAAAAATGCA
4876886 GAAGGAACAG
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
116 83 0.99
117 1 0.01
ACGTcount: A:0.50, C:0.14, G:0.21, T:0.15
Consensus pattern (116 bp):
ACATTACGAGAACAATTACAACAGTACGAGGAAAAAATGCAAAAAGAACAGGAAAATGCCATACG
GGAACAATTACAACAGTACACGGAAAAAATGCAAAAAAAGATGAAAATAAA
Found at i:4877082 original size:57 final size:57
Alignment explanation
Indices: 4876976--4877424 Score: 373
Period size: 57 Copynumber: 7.8 Consensus size: 57
4876966 CAACTTTGGG
* *
4876976 GCAAAAAGAACAGGAAAATGGCACATTATGGGAACAATTACGACAGTATGAGGAGAAA-AT
1 GCAAAAAGAACAGGAAAAT-GC-CA-TACGGGAACAATTACAACAGTATGAGGA-AAATAT
* * *
4877036 G-AAAAAGGAACAGGAAAATGCCATAGGGGAACAATTACAACTGTATGCGGAAAATAT
1 GCAAAAA-GAACAGGAAAATGCCATACGGGAACAATTACAACAGTATGAGGAAAATAT
* * * *
4877093 G-AGAAAAGAAGAGGAAATTGACACATTACGGGAACAATT---AC---A-GAGGCAAAGAT
1 GCA-AAAAGAACAGGAAAATG-C-CA-TACGGGAACAATTACAACAGTATGAGGAAAATAT
* * * *
4877146 GCAAAAAGAACTGGAAAATGCCATACAGGAACAATTACAACAGTACGAGGAAAAAAT
1 GCAAAAAGAACAGGAAAATGCCATACGGGAACAATTACAACAGTATGAGGAAAATAT
* * * * ** * *
4877203 GCAGAAGGAACAGGAAAATGCCATACGGGAAGAATTACAACTGTGCGAAGCAAATAT
1 GCAAAAAGAACAGGAAAATGCCATACGGGAACAATTACAACAGTATGAGGAAAATAT
* * * *
4877260 GCAAAAAGAACAGGAAAAT-CACATATTACGGGAACAATTACAGCAGGACGAGGAAAAGAT
1 GCAAAAAGAACAGGAAAATGC-C--A-TACGGGAACAATTACAACAGTATGAGGAAAATAT
* * * *
4877320 GCAAAAAGAACTGGAAAATGCCATACGGGAACAATTACTAA-AGTACGAGGCACATAT
1 GCAAAAAGAACAGGAAAATGCCATACGGGAACAATTAC-AACAGTATGAGGAAAATAT
* * *
4877377 GCAAAAATAACAGGAGAATGACACATTACGGGAACAATTAAAACAGTA
1 GCAAAAAGAACAGGAAAATG-C-CA-TACGGGAACAATTACAACAGTA
4877425 CAAGGCGAAG
Statistics
Matches: 319, Mismatches: 46, Indels: 48
0.77 0.11 0.12
Matches are distributed among these distances:
50 12 0.04
51 2 0.01
52 1 0.00
53 25 0.08
54 2 0.01
56 5 0.02
57 159 0.50
58 10 0.03
59 14 0.04
60 88 0.28
61 1 0.00
ACGTcount: A:0.49, C:0.14, G:0.23, T:0.14
Consensus pattern (57 bp):
GCAAAAAGAACAGGAAAATGCCATACGGGAACAATTACAACAGTATGAGGAAAATAT
Found at i:4877214 original size:167 final size:169
Alignment explanation
Indices: 4876976--4877416 Score: 509
Period size: 167 Copynumber: 2.6 Consensus size: 169
4876966 CAACTTTGGG
* * * * *
4876976 GCAAAAAGAACAGGAAAATGGCACATTATGGGAACAATTACGACAGTATGAGGAGAAAATGAAAA
1 GCAAAAAGAACTGGAAAAT-GC-CA-TACGGGAACAATTACAACAGTACGAGGAAAAAATGAAAA
* *
4877041 AGGAACAGGAAAATGCCATAGGGGAACAATTACAACTGTATGCG-GAAAATATG-AGAAAAGAAG
63 AGGAACAGGAAAATGCCATACGGGAACAATTACAACTG--TGCGAGAAAATATGCA-AAAAGAAC
* *
4877104 AGGAAATTGACACATTACGGGAACAATTACAG-AGG-C-AAAGAT
125 AGGAAAATCACACATTACGGGAACAATTACAGCAGGACGAAAGAT
* * *
4877146 GCAAAAAGAACTGGAAAATGCCATACAGGAACAATTACAACAGTACGAGGAAAAAATGCAGAAGG
1 GCAAAAAGAACTGGAAAATGCCATACGGGAACAATTACAACAGTACGAGGAAAAAATGAAAAAGG
* *
4877211 AACAGGAAAATGCCATACGGGAAGAATTACAACTGTGCGAAGCAAATATGCAAAAAGAACAGGAA
66 AACAGGAAAATGCCATACGGGAACAATTACAACTGTGCG-AGAAAATATGCAAAAAGAACAGGAA
*
4877276 AATCACATATTACGGGAACAATTACAGCAGGACGAGGAAAAGAT
130 AATCACACATTACGGGAACAATTACAGCAGGAC---G-AAAGAT
* * *
4877320 GCAAAAAGAACTGGAAAATGCCATACGGGAACAATTACTAA-AGTACGAGGCACATATGCAAAAA
1 GCAAAAAGAACTGGAAAATGCCATACGGGAACAATTAC-AACAGTACGAGGAAAAAATG-AAAAA
* *
4877384 -TAACAGGAGAATGACACATTACGGGAACAATTA
64 GGAACAGGAAAATG-C-CA-TACGGGAACAATTA
4877417 AAACAGTACA
Statistics
Matches: 232, Mismatches: 24, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
165 4 0.02
167 112 0.48
168 6 0.03
169 3 0.01
170 18 0.08
174 68 0.29
175 6 0.03
176 2 0.01
177 13 0.06
ACGTcount: A:0.48, C:0.14, G:0.23, T:0.14
Consensus pattern (169 bp):
GCAAAAAGAACTGGAAAATGCCATACGGGAACAATTACAACAGTACGAGGAAAAAATGAAAAAGG
AACAGGAAAATGCCATACGGGAACAATTACAACTGTGCGAGAAAATATGCAAAAAGAACAGGAAA
ATCACACATTACGGGAACAATTACAGCAGGACGAAAGAT
Found at i:4877436 original size:117 final size:117
Alignment explanation
Indices: 4876976--4877443 Score: 421
Period size: 117 Copynumber: 4.1 Consensus size: 117
4876966 CAACTTTGGG
* * * *
4876976 GCAAAAAGAACAGGAAAATGGCACATTATGGGAACAATTACGACAGTATGAGG-AGAAAATG-AA
1 GCAAAAAGAACAGGAAAAT-GC-CA-TACGGGAACAATTACAACAGTACGAGGCA-AATATGCAA
* * * * *
4877039 AAAGGAACAGGAAAATG-C-CA-TAGGGGAACAATTACAACTGTATGCGGAAAATAT
62 AAA-GAACAGGAAAATGACACATTACGGGAACAATTACAACAGTACGAGGAAAAGAT
* * *
4877093 G-AGAAAAGAAGAGGAAATTGACACATTACGGGAACAATT---AC---A-GAGGCAAAGATGCAA
1 GCA-AAAAGAACAGGAAAATG-C-CA-TACGGGAACAATTACAACAGTACGAGGCAAATATGCAA
* * *
4877150 AAAGAACTGGAAAATG-C-CA-TACAGGAACAATTACAACAGTACGAGGAAAAAAT
62 AAAGAACAGGAAAATGACACATTACGGGAACAATTACAACAGTACGAGGAAAAGAT
* * * * * *
4877203 GCAGAAGGAACAGGAAAATGCCATACGGGAAGAATTACAACTGTGCGAAGCAAATATGCAAAAAG
1 GCAAAAAGAACAGGAAAATGCCATACGGGAACAATTACAACAGTACGAGGCAAATATGCAAAAAG
* * * *
4877268 AACAGGAAAATCACATATTACGGGAACAATTACAGCAGGACGAGGAAAAGAT
66 AACAGGAAAATGACACATTACGGGAACAATTACAACAGTACGAGGAAAAGAT
* *
4877320 GCAAAAAGAACTGGAAAATGCCATACGGGAACAATTACTAA-AGTACGAGGCACATATGCAAAAA
1 GCAAAAAGAACAGGAAAATGCCATACGGGAACAATTAC-AACAGTACGAGGCAAATATGCAAAAA
* * * * **
4877384 TAACAGGAGAATGACACATTACGGGAACAATTAAAACAGTACAAGGCGAAGAT
65 GAACAGGAAAATGACACATTACGGGAACAATTACAACAGTACGAGGAAAAGAT
*
4877437 GAAAAAA
1 GCAAAAA
4877444 ATGGAGGAGA
Statistics
Matches: 290, Mismatches: 45, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
107 12 0.04
108 2 0.01
109 1 0.00
110 68 0.23
111 8 0.03
114 29 0.10
115 1 0.00
116 3 0.01
117 164 0.57
118 2 0.01
ACGTcount: A:0.49, C:0.14, G:0.23, T:0.14
Consensus pattern (117 bp):
GCAAAAAGAACAGGAAAATGCCATACGGGAACAATTACAACAGTACGAGGCAAATATGCAAAAAG
AACAGGAAAATGACACATTACGGGAACAATTACAACAGTACGAGGAAAAGAT
Found at i:4878773 original size:165 final size:166
Alignment explanation
Indices: 4878497--4878811 Score: 528
Period size: 165 Copynumber: 1.9 Consensus size: 166
4878487 GATTTATCTC
*
4878497 ATGTTTTCATTTACATAGTTTAATGTATGTATTTATGTATGTATACATTGTGAAGTTCTTCCTAC
1 ATGTTTTCATTTACATAGTTTAATGTATG---TTATGTATGTATACATTGTAAAGTTCTTCCTAC
* *
4878562 TGTTAATCTCAGTCAGTTATTTTCACTCATCCAACGGTCTTAAATCTGTGTAAAATTAAATAATT
63 TGTTAATCTCAGTCAGTTATTTTCACTCATCCAACGGTCTTAAATCTGTGTAAAACTAAATAAAT
4878627 TTTACATTGTGTAATAGGATTCTCTCTCTCCCCCCCCTA
128 TTTACATTGTGTAATAGGATTCTCTCTCTCCCCCCCCTA
4878666 ATGTTTTCATTTACATAGTTTAATGTATG-TATGTATGTATACATTGTAAAGTTCTTCCTACTGT
1 ATGTTTTCATTTACATAGTTTAATGTATGTTATGTATGTATACATTGTAAAGTTCTTCCTACTGT
*
4878730 TAATTTCAGTCA-TCTATTTTCACTCATCCAACGGT-TCTAAATCTGTGTAAAACTAAATAAATT
66 TAATCTCAGTCAGT-TATTTTCACTCATCCAACGGTCT-TAAATCTGTGTAAAACTAAATAAATT
4878793 TTACATTGTGTAATAGGAT
129 TTACATTGTGTAATAGGAT
4878812 ACTCCCTCCC
Statistics
Matches: 140, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
164 2 0.01
165 109 0.78
169 29 0.21
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (166 bp):
ATGTTTTCATTTACATAGTTTAATGTATGTTATGTATGTATACATTGTAAAGTTCTTCCTACTGT
TAATCTCAGTCAGTTATTTTCACTCATCCAACGGTCTTAAATCTGTGTAAAACTAAATAAATTTT
ACATTGTGTAATAGGATTCTCTCTCTCCCCCCCCTA
Found at i:4885468 original size:59 final size:60
Alignment explanation
Indices: 4885404--4885550 Score: 197
Period size: 60 Copynumber: 2.5 Consensus size: 60
4885394 GGAATGTTTA
** *
4885404 AAAAGTTTGGGGACTAATTTCGAATG-TAGTCATAGTTTGGGGATGAAATTAAAATATTC
1 AAAAGTTTGGGGACTAATTTAAAATGATAGTCATAGTTTAGGGATGAAATTAAAATATTC
* * * *
4885463 AAAAGTTTGAGGACTAATTTAAAATGATAGTCATAGTTTAGTGATGAAATTGAAATATTT
1 AAAAGTTTGGGGACTAATTTAAAATGATAGTCATAGTTTAGGGATGAAATTAAAATATTC
* * *
4885523 AAAAGATTAGGGACCAATTTAAAATGAT
1 AAAAGTTTGGGGACTAATTTAAAATGAT
4885551 GATCATACAT
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
59 23 0.30
60 53 0.70
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.33
Consensus pattern (60 bp):
AAAAGTTTGGGGACTAATTTAAAATGATAGTCATAGTTTAGGGATGAAATTAAAATATTC
Found at i:4887504 original size:20 final size:20
Alignment explanation
Indices: 4887481--4887526 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
4887471 GTTTCCAAAT
4887481 TCGCAACGCGAATATGTAAA
1 TCGCAACGCGAATATGTAAA
** * *
4887501 TCGCATTGCGATTCTGTAAA
1 TCGCAACGCGAATATGTAAA
4887521 TCGCAA
1 TCGCAA
4887527 TACAGAAGTC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGAATATGTAAA
Found at i:4887559 original size:20 final size:21
Alignment explanation
Indices: 4887535--4887588 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
4887525 AATACAGAAG
4887535 TCAAATTCGCAAC-GTG-ATT
1 TCAAATTCGCAACAGTGAATT
*
4887554 TACAAATTCGCAACATTGAATT
1 T-CAAATTCGCAACAGTGAATT
4887576 TCAAATTCGCAAC
1 TCAAATTCGCAAC
4887589 TCGATTTCTG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 1 0.03
20 12 0.39
21 14 0.45
22 4 0.13
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (21 bp):
TCAAATTCGCAACAGTGAATT
Found at i:4887608 original size:41 final size:40
Alignment explanation
Indices: 4887535--4887627 Score: 100
Period size: 41 Copynumber: 2.3 Consensus size: 40
4887525 AATACAGAAG
*
4887535 TCAAATTCGCAACGTGATTTACAAATTCGCAACATTGAATT
1 TCAAATTCGCAACGTGATTTACAAATTCGCAAC-TCGAATT
* * *
4887576 TCAAATTCGCAAC-TCGATTT-CTGAATTTGCAACTCGATTT
1 TCAAATTCGCAACGT-GATTTAC-AAATTCGCAACTCGAATT
*
4887616 TCGAATTCGCAA
1 TCAAATTCGCAA
4887628 TACGAATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
40 18 0.40
41 27 0.60
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (40 bp):
TCAAATTCGCAACGTGATTTACAAATTCGCAACTCGAATT
Found at i:4887621 original size:20 final size:19
Alignment explanation
Indices: 4887538--4887627 Score: 83
Period size: 20 Copynumber: 4.5 Consensus size: 19
4887528 ACAGAAGTCA
*
4887538 AATTCGCAACGT-GATTTACA
1 AATTCGCAAC-TCGATTT-CG
* *
4887558 AATTCGCAACATTGAATTTCA
1 AATTCGCAAC-TCG-ATTTCG
4887579 AATTCGCAACTCGATTTCTG
1 AATTCGCAACTCGATTTC-G
*
4887599 AATTTGCAACTCGATTTTCG
1 AATTCGCAACTCGA-TTTCG
4887619 AATTCGCAA
1 AATTCGCAA
4887628 TACGAATTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.08
20 35 0.57
21 17 0.28
22 4 0.07
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.33
Consensus pattern (19 bp):
AATTCGCAACTCGATTTCG
Found at i:4888608 original size:24 final size:24
Alignment explanation
Indices: 4888581--4888639 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
4888571 AGTCAGTATT
*
4888581 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
4888605 CGAACTTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
*
4888629 CGGACTTTGAT
1 CGAACTTTGAT
4888640 GATGTTTCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Found at i:4890893 original size:18 final size:18
Alignment explanation
Indices: 4890870--4890905 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4890860 AAGCAAAAGG
4890870 AAATCAAAATCGCAATCA
1 AAATCAAAATCGCAATCA
*
4890888 AAATCAAAATCTCAATCA
1 AAATCAAAATCGCAATCA
4890906 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCGCAATCA
Found at i:4891329 original size:25 final size:25
Alignment explanation
Indices: 4891291--4891340 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
4891281 AAATCAATTA
*
4891291 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
*
4891316 AACATTGTTATGGGTACCTTATTTG
1 AACATTGTTATGGGTACATTATTTG
4891341 GAAAATAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:4891738 original size:30 final size:30
Alignment explanation
Indices: 4891704--4891761 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
4891694 TTTCAAATTC
4891704 ATTTCATATGT-AATTAGAGTTTGAATTTCA
1 ATTTCA-ATGTGAATTAGAGTTTGAATTTCA
* * *
4891734 ATTTCAATTTGAGTTTGAGTTTGAATTT
1 ATTTCAATGTGAATTAGAGTTTGAATTT
4891762 AAATATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.50
Consensus pattern (30 bp):
ATTTCAATGTGAATTAGAGTTTGAATTTCA
Found at i:4891742 original size:24 final size:24
Alignment explanation
Indices: 4891715--4891761 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4891705 TTTCATATGT
4891715 AATTAGAGTTTGAATTTCAATTTC
1 AATTAGAGTTTGAATTTCAATTTC
* * *
4891739 AATTTGAGTTTGAGTTTGAATTT
1 AATTAGAGTTTGAATTTCAATTT
4891762 AAATATAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.04, G:0.17, T:0.49
Consensus pattern (24 bp):
AATTAGAGTTTGAATTTCAATTTC
Found at i:4893553 original size:64 final size:64
Alignment explanation
Indices: 4893451--4893602 Score: 241
Period size: 64 Copynumber: 2.4 Consensus size: 64
4893441 AATTTAAAAC
*
4893451 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTACACATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAAGAATTATTTACACATCAATTA
*** * *
4893515 AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAAGAATTATTTACACATCAATTA
*
4893579 AACAAATCAACTTTTAGAAATCAA
1 AACAAATCAACTTTTACAAATCAA
4893603 CTCTTACAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 81 1.00
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.28
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAAGAATTATTTACACATCAATTA
Found at i:4893601 original size:14 final size:14
Alignment explanation
Indices: 4893580--4893616 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4893570 CATCAATTAA
*
4893580 ACAAATCAACTTTT
1 ACAAATCAACTCTT
*
4893594 AGAAATCAACTCTT
1 ACAAATCAACTCTT
4893608 ACAAATCAA
1 ACAAATCAA
4893617 TTAAGCAAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.03, T:0.27
Consensus pattern (14 bp):
ACAAATCAACTCTT
Found at i:4893604 original size:78 final size:78
Alignment explanation
Indices: 4893516--4893677 Score: 288
Period size: 78 Copynumber: 2.1 Consensus size: 78
4893506 CATCAATTAA
*
4893516 ACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAATTCTTATTTCCTCATCAATTAAA
1 ACAAATCAACTCTTACAAATCAATTAAACAAGAAAAAAATAATTCTTATTTCCTCATCAATTAAA
4893581 CAAATCAACTTTT
66 CAAATCAACTTTT
* * *
4893594 AGAAATCAACTCTTACAAATCAATTAAGCAAGCAAAAAATAATTCTTATTTCCTCATCAATTAAA
1 ACAAATCAACTCTTACAAATCAATTAAACAAGAAAAAAATAATTCTTATTTCCTCATCAATTAAA
4893659 CAAATCAACTTTT
66 CAAATCAACTTTT
4893672 ACAAAT
1 ACAAAT
4893678 ACATCAATTT
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (78 bp):
ACAAATCAACTCTTACAAATCAATTAAACAAGAAAAAAATAATTCTTATTTCCTCATCAATTAAA
CAAATCAACTTTT
Found at i:4897212 original size:20 final size:20
Alignment explanation
Indices: 4897189--4897255 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
4897179 TCTGAAACTT
*
4897189 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
*
4897209 AAAATCGCAACGCAAAAATG
1 AAAATCGCAACGCGAAAATG
*
4897229 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACGCGAAAATG
4897248 AAAATCGC
1 AAAATCGC
4897256 GTTGCGATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
19 8 0.19
20 35 0.81
ACGTcount: A:0.52, C:0.22, G:0.15, T:0.10
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:4897836 original size:20 final size:18
Alignment explanation
Indices: 4897820--4897893 Score: 67
Period size: 20 Copynumber: 3.8 Consensus size: 18
4897810 CTTGACTTCT
*
4897820 GTGTTGCGAATTTGACTTC
1 GTGTTACGAATTTGA-TTC
4897839 TGTGTTACGAATTATAGATTC
1 -GTGTTACGAATT-T-GATTC
*
4897860 GTGTTACGAATTACAGATTC
1 GTGTTACGAATT--TGATTC
*
4897880 GTGTTGCGAATTTG
1 GTGTTACGAATTTG
4897894 GAAACTGAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
18 1 0.02
20 39 0.85
21 4 0.09
22 2 0.04
ACGTcount: A:0.23, C:0.12, G:0.24, T:0.41
Consensus pattern (18 bp):
GTGTTACGAATTTGATTC
Found at i:4900907 original size:125 final size:123
Alignment explanation
Indices: 4900736--4901102 Score: 402
Period size: 125 Copynumber: 2.9 Consensus size: 123
4900726 AAAATATATA
* * * *
4900736 AATTAACACATACTTACA-ACGATGTAAGTACT-TACATCTCTCAATATCTTAGTATCTAAAAAT
1 AATTAATACATACTTACACA-GGTGTAAATA-TGTACATCTCTCAATATATT-GTATCTAAAAAT
* ** *
4900799 AAATACATAATTATATTAGTGTAAGTATATTTCTTTATTTTTAAATAAATAAAAGGTGTAGC
63 AAATACATAATTATATTAGTGTAAGTATATTT-TTTATTTTTAAAGAAATAAAAAATGTAAC
* * *
4900861 AATTAATACATATTTGCATC-GGTGTAAATATGTACATCTCTCAATATATTCGTACCTAAAAATA
1 AATTAATACATACTTACA-CAGGTGTAAATATGTACATCTCTCAATATATT-GTATCTAAAAATA
* * *
4900925 AATACATAATTATATTGGTGTAAGTAT-TTTTTTGACTTTTCAAAGAAATAAAAAATGTAAT
64 AATACATAATTATATTAGTGTAAGTATATTTTTT-A-TTTTTAAAGAAATAAAAAATGTAAC
* * * *
4900986 AATTAATATATACTTACACATGTGTAAATATGTACATATCTTAATATATTGATATCTAAAAATAA
1 AATTAATACATACTTACACAGGTGTAAATATGTACATCTCTCAATATATTG-TATCTAAAAATAA
** * * *
4901051 ATTTATTATTATATTAAT-TAAGTATAATTTTATATTTTTAAAGAAATAAAAA
65 ATACATAATTATATTAGTGTAAGTAT-ATTTTTTATTTTTAAAGAAATAAAAA
4901103 GTTAAAAATA
Statistics
Matches: 204, Mismatches: 29, Indels: 19
0.81 0.12 0.08
Matches are distributed among these distances:
123 3 0.01
124 31 0.15
125 165 0.81
126 5 0.02
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (123 bp):
AATTAATACATACTTACACAGGTGTAAATATGTACATCTCTCAATATATTGTATCTAAAAATAAA
TACATAATTATATTAGTGTAAGTATATTTTTTATTTTTAAAGAAATAAAAAATGTAAC
Found at i:4901584 original size:15 final size:14
Alignment explanation
Indices: 4901547--4901581 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
4901537 TGTTTAACTG
4901547 AAAATAATTTTTGA
1 AAAATAATTTTTGA
4901561 AAAATAATTTTT-A
1 AAAATAATTTTTGA
4901574 TAAAATAA
1 -AAAATAA
4901582 ATTATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 1 0.05
14 19 0.95
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (14 bp):
AAAATAATTTTTGA
Found at i:4901603 original size:14 final size:15
Alignment explanation
Indices: 4901586--4901614 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4901576 AAATAAATTA
4901586 TATTTTTTA-AAAAT
1 TATTTTTTAGAAAAT
4901600 TATTTTTTAGAAAAT
1 TATTTTTTAGAAAAT
4901615 GTTTAGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTTTTTAGAAAAT
Found at i:4901961 original size:19 final size:19
Alignment explanation
Indices: 4901926--4901986 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
4901916 ATTAAAATAT
*
4901926 TATTAGAATATTA-TATTAA
1 TATTA-AATAATATTATTAA
*
4901945 TATTAAATAATATTATTCAT
1 TATTAAATAATATTATT-AA
*
4901965 TATT-AATAAT-TTAATAA
1 TATTAAATAATATTATTAA
4901982 TATTA
1 TATTA
4901987 TTTATATGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
17 5 0.14
18 10 0.29
19 15 0.43
20 5 0.14
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
TATTAAATAATATTATTAA
Found at i:4901961 original size:24 final size:24
Alignment explanation
Indices: 4901934--4902001 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 24
4901924 ATTATTAGAA
4901934 TATTATATTAATATTAAATAATAT
1 TATTATATTAATATTAAATAATAT
*
4901958 TATTCATTATTAATAATTTAATAATAT
1 TATT-A-TATTAAT-ATTAAATAATAT
*
4901985 TATTTATATGAA-ATTAA
1 TA-TTATATTAATATTAA
4902002 TAAGTAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
24 8 0.22
25 1 0.03
26 12 0.32
27 14 0.38
28 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (24 bp):
TATTATATTAATATTAAATAATAT
Found at i:4902118 original size:22 final size:23
Alignment explanation
Indices: 4902090--4902136 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
4902080 TTGATTATTT
4902090 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
*
4902112 TATTATATTATTAAAAATATTAA
1 TATTATAATATTAAAAATATTAA
4902135 TA
1 TA
4902137 AATATAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:4902141 original size:22 final size:22
Alignment explanation
Indices: 4902098--4902147 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
4902088 TTTATTATAA
*
4902098 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
4902120 TATTAAAAATATTAATA-AATAT
1 TATTAAAAATA-TAATATAATAT
*
4902142 AATTAA
1 TATTAA
4902148 TATTTTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:4902151 original size:31 final size:30
Alignment explanation
Indices: 4902096--4902155 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
4902086 ATTTTATTAT
*
4902096 AATATTAAAAATATAATATTATATTATTAAA
1 AATATTAAAAATATAATATAATATT-TTAAA
4902127 AATATTAATAAATATAAT-TAATATTTTAA
1 AATATTAA-AAATATAATATAATATTTTAA
4902156 TAATTAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 4 0.15
31 14 0.52
32 9 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (30 bp):
AATATTAAAAATATAATATAATATTTTAAA
Found at i:4902160 original size:15 final size:15
Alignment explanation
Indices: 4902140--4902171 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
4902130 ATTAATAAAT
4902140 ATAATTAATATTTTA
1 ATAATTAATATTTTA
4902155 ATAATTAATATTTTA
1 ATAATTAATATTTTA
4902170 AT
1 AT
4902172 TAAAATAATA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATAATTAATATTTTA
Found at i:4902180 original size:24 final size:23
Alignment explanation
Indices: 4902153--4902198 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 23
4902143 ATTAATATTT
4902153 TAATAATT-AATATTTTAATTAAAA
1 TAAT-ATTAAATATTTT-ATTAAAA
4902177 TAATATTAAAATATTTTATTAA
1 TAATATT-AAATATTTTATTAA
4902199 TATTAAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 3 0.15
24 9 0.45
25 8 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATATTAAATATTTTATTAAAA
Found at i:4902182 original size:17 final size:15
Alignment explanation
Indices: 4902140--4902183 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
4902130 ATTAATAAAT
*
4902140 ATAATTAATATTTTA
1 ATAAATAATATTTTA
*
4902155 ATAATTAATATTTTA
1 ATAAATAATATTTTA
4902170 ATTAAAATAATATT
1 A-T-AAATAATATT
4902184 AAAATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 16 0.62
16 1 0.04
17 9 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATAAATAATATTTTA
Found at i:4904053 original size:6 final size:6
Alignment explanation
Indices: 4904044--4904554 Score: 985
Period size: 6 Copynumber: 85.8 Consensus size: 6
4904034 CAAATCCAAA
4904044 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
4904092 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
4904140 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
*
4904188 TATATG TATATG TATATG TATATG TATATG TATATA TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
4904236 TATATG TATATG TATATG TATATG --TATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
4904282 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
4904330 TATATG TATATG --TATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
4904376 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
4904424 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
4904472 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
4904520 TATATG TATATG TATATG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATATG TATAT
4904555 ACGATTTTCA
Statistics
Matches: 499, Mismatches: 2, Indels: 8
0.98 0.00 0.02
Matches are distributed among these distances:
4 8 0.02
6 491 0.98
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:4912894 original size:2 final size:2
Alignment explanation
Indices: 4912887--4912924 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4912877 CAGATACACA
4912887 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
4912925 GTGTGTGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4912929 original size:2 final size:2
Alignment explanation
Indices: 4912924--4912962 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4912914 TATATATATA
4912924 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
4912963 CAGTGTTCAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:4921364 original size:19 final size:19
Alignment explanation
Indices: 4921340--4921376 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
4921330 TTCTAAGAGG
4921340 ATAAAAACTA-AAAATATAA
1 ATAAAAA-TATAAAATATAA
4921359 ATAAAAATATAAAATATA
1 ATAAAAATATAAAATATA
4921377 TGATAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (19 bp):
ATAAAAATATAAAATATAA
Found at i:4921977 original size:2 final size:2
Alignment explanation
Indices: 4921970--4922006 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
4921960 TTTCTTTTAA
4921970 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4922007 TTAAAAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4924275 original size:23 final size:23
Alignment explanation
Indices: 4924241--4924309 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
4924231 CACCACAGCT
*
4924241 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
4924264 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
4924287 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
4924310 TATAAGATGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:4926146 original size:19 final size:19
Alignment explanation
Indices: 4926122--4926173 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
4926112 TCGTAAGGGG
4926122 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
4926141 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
4926160 TGCATCGATGCACT
1 TGCATCGATGCACT
4926174 AATTGCATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (19 bp):
TGCATCGATGCACTCCTTA
Found at i:4929301 original size:23 final size:23
Alignment explanation
Indices: 4929264--4929327 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
4929254 ACAGCTCGAT
* *
4929264 AAATGCACCGAAGTGCCACGTAG
1 AAATACACCGAAGTGCCACATAG
* *
4929287 AATTACACC-ATAGTGCCGCATAG
1 AAATACACCGA-AGTGCCACATAG
4929310 AAATACACCGAAGTGCCA
1 AAATACACCGAAGTGCCA
4929328 TATAAGATGT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 1 0.03
23 31 0.94
24 1 0.03
ACGTcount: A:0.38, C:0.27, G:0.20, T:0.16
Consensus pattern (23 bp):
AAATACACCGAAGTGCCACATAG
Found at i:4929762 original size:19 final size:19
Alignment explanation
Indices: 4929738--4929776 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4929728 CTAGGTCACA
4929738 TCATATGA-ATCATATCTTT
1 TCATATGATATCATAT-TTT
*
4929757 TCATATTATATCATATTTT
1 TCATATGATATCATATTTT
4929776 T
1 T
4929777 ATACCACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.31, C:0.13, G:0.03, T:0.54
Consensus pattern (19 bp):
TCATATGATATCATATTTT
Found at i:4931449 original size:583 final size:583
Alignment explanation
Indices: 4930343--4931495 Score: 2063
Period size: 583 Copynumber: 2.0 Consensus size: 583
4930333 TTCAATTTCA
* *
4930343 TATAACTCTTATAATATTTATCATAGGGATTCTATAGTTTTTCATTTATAACTCATATATCATAG
1 TATAACTCTTATAATACTTATCATAGGGATTCTATAGTTTCTCATTTATAACTCATATATCATAG
* * *
4930408 TTCCTATAGTGTTTATCCTATAGGTTTGTATCACCATTATATAGTCATGCACATATACAAATCAT
66 TTCCTATAGTGCTTAACCTATAGGTTCGTATCACCATTATATAGTCATGCACATATACAAATCAT
4930473 GTAATACATATAATCACAAATAACACATATACTCATCTTAAACCCATGATCATGCTCATGATTTC
131 GTAATACATATAATCACAAATAACACATATACTCATCTTAAACCCATGATCATGCTCATGATTTC
*
4930538 ATGCATACTACCATAGAAAATAGACTCATCACAAGTCTTGTTTCCATTCATCATACATAACTAAC
196 ATGCATACTACCATAGAAAATAGACTCATCACAAGTCTTGTTTCCATTCATCATACACAACTAAC
* *
4930603 ATGCACTCACCTGGCCTCACTAGTCAATATCAATCTCTTATCTTTCCCCCTGAATCGATCTTATT
261 ATGCACTCACCTGACCTCACTAGTCAATACCAATCTCTTATCTTTCCCCCTGAATCGATCTTATT
* * *
4930668 TATCAATGATTCTGGAACTCGCTAAGCTCTGAATCTATATAGTAATGTATTGATACATATCAGTA
326 TATCAATGATTCCGGAACTCGCTAAGCTCTGAATCTACATAGTAATGTATTGATACATATCAATA
4930733 TACTAATTAATATATTCAAAACTATCAATTCTTAGACTAAAAGAAAACTATTTTCATCTTTTAAT
391 TACTAATTAATATATTCAAAACTATCAATTCTTAGACTAAAAGAAAACTATTTTCATCTTTTAAT
4930798 AAAGGTATGCATCGATGCATTCTACAGTGTATCGATGCATTCCTTAACCTGTGCATCGATGCACT
456 AAAGGTATGCATCGATGCATTCTACAGTGTATCGATGCATTCCTTAACCTGTGCATCGATGCACT
* *
4930863 ACCTGTGCATCGGTACACAAATCACCTTCGATATTTCTTCTTAAGGGGTTCTATAGTTTCATG
521 ACCTGTGCATCGGTACACAAATCAACTTCGATATTTATTCTTAAGGGGTTCTATAGTTTCATG
*
4930926 TATAACTCTTATAATCCTTATCATAGGGATTCTATAGTTTCTCATTTATAACTCATATATCATAG
1 TATAACTCTTATAATACTTATCATAGGGATTCTATAGTTTCTCATTTATAACTCATATATCATAG
*
4930991 TTCCTATAGTGCTTAACCTATAGGTTCGTATCACCATTATATAGTCATGCACGTATACAAATCAT
66 TTCCTATAGTGCTTAACCTATAGGTTCGTATCACCATTATATAGTCATGCACATATACAAATCAT
* *
4931056 GTAATACATATAATCACAAATAGCACATATACTCATCTTACACCCATGATCATGCTCATGATTTC
131 GTAATACATATAATCACAAATAACACATATACTCATCTTAAACCCATGATCATGCTCATGATTTC
* * * *
4931121 ATGTATACTACCATAGAAAATAGACTCATCACGAGTCTTGTTTCCATTCATCATTCACCACTAAC
196 ATGCATACTACCATAGAAAATAGACTCATCACAAGTCTTGTTTCCATTCATCATACACAACTAAC
* *
4931186 ATGCACTCACCTGACCTCACTAGTCAATACCAATCTCTTATCTTTCCCCCTGGATCGATTTTATT
261 ATGCACTCACCTGACCTCACTAGTCAATACCAATCTCTTATCTTTCCCCCTGAATCGATCTTATT
4931251 TATCAATGATTCCGGAACTCGCTAAGCTCTGAATCTACATAGTAATGTATTGATACATATCAATA
326 TATCAATGATTCCGGAACTCGCTAAGCTCTGAATCTACATAGTAATGTATTGATACATATCAATA
*
4931316 TACTAATTAATATATTCAAAACTATCAATTCTTAGGCTAAAAGAAAACTATTTTCATCTTTTAAT
391 TACTAATTAATATATTCAAAACTATCAATTCTTAGACTAAAAGAAAACTATTTTCATCTTTTAAT
* * *
4931381 AAAGGTATGCATTGATGCATTCTACAGTGTATCGATGCATTCCTTAACGTGTGTATCGATGCACT
456 AAAGGTATGCATCGATGCATTCTACAGTGTATCGATGCATTCCTTAACCTGTGCATCGATGCACT
4931446 ACCTGTGCATCGGTACACAAATCAACTTCGATATTTATTCTTAAGGGGTT
521 ACCTGTGCATCGGTACACAAATCAACTTCGATATTTATTCTTAAGGGGTT
4931496 ACATCGATGC
Statistics
Matches: 543, Mismatches: 27, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
583 543 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (583 bp):
TATAACTCTTATAATACTTATCATAGGGATTCTATAGTTTCTCATTTATAACTCATATATCATAG
TTCCTATAGTGCTTAACCTATAGGTTCGTATCACCATTATATAGTCATGCACATATACAAATCAT
GTAATACATATAATCACAAATAACACATATACTCATCTTAAACCCATGATCATGCTCATGATTTC
ATGCATACTACCATAGAAAATAGACTCATCACAAGTCTTGTTTCCATTCATCATACACAACTAAC
ATGCACTCACCTGACCTCACTAGTCAATACCAATCTCTTATCTTTCCCCCTGAATCGATCTTATT
TATCAATGATTCCGGAACTCGCTAAGCTCTGAATCTACATAGTAATGTATTGATACATATCAATA
TACTAATTAATATATTCAAAACTATCAATTCTTAGACTAAAAGAAAACTATTTTCATCTTTTAAT
AAAGGTATGCATCGATGCATTCTACAGTGTATCGATGCATTCCTTAACCTGTGCATCGATGCACT
ACCTGTGCATCGGTACACAAATCAACTTCGATATTTATTCTTAAGGGGTTCTATAGTTTCATG
Found at i:4954142 original size:2 final size:2
Alignment explanation
Indices: 4954135--4954162 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4954125 TTTGTTTTAA
4954135 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
4954163 TGTTTATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4958028 original size:33 final size:32
Alignment explanation
Indices: 4957991--4958103 Score: 144
Period size: 30 Copynumber: 3.6 Consensus size: 32
4957981 TGCTGAACCA
4957991 GCTCCTCCACCACCTCCTCCTCCTAAAGGTGGT
1 GCTCCTCCACCACCTCCTCCTCC-AAAGGTGGT
*
4958024 GCTCCTCCACCACCTCC-CC-CCAAAGCTGGT
1 GCTCCTCCACCACCTCCTCCTCCAAAGGTGGT
* *
4958054 GCTCCTCCGCCACCTCCT--TCAAAAGGTGGT
1 GCTCCTCCACCACCTCCTCCTCCAAAGGTGGT
* *
4958084 GCTCCTACGCCACCTCCTCC
1 GCTCCTCCACCACCTCCTCC
4958104 GAAAGTTGTT
Statistics
Matches: 71, Mismatches: 5, Indels: 9
0.84 0.06 0.11
Matches are distributed among these distances:
30 50 0.70
31 2 0.03
32 2 0.03
33 17 0.24
ACGTcount: A:0.15, C:0.49, G:0.15, T:0.21
Consensus pattern (32 bp):
GCTCCTCCACCACCTCCTCCTCCAAAGGTGGT
Found at i:4960078 original size:27 final size:27
Alignment explanation
Indices: 4960048--4960301 Score: 204
Period size: 30 Copynumber: 9.0 Consensus size: 27
4960038 CCGAGTCTCG
* *
4960048 TGCTGCACCACCTTCTCCCGATCCTCA
1 TGCTGCACCACCTCCTCCTGATCCTCA
*
4960075 TGCTGCACCACCTTCTCCTGATCAC-CA
1 TGCTGCACCACCTCCTCCTGATC-CTCA
* * *
4960102 TGCTGCACCGCCCCCTCCTGATCCCCA
1 TGCTGCACCACCTCCTCCTGATCCTCA
* *
4960129 TGATGCACCACCGCCTCTTCCTGATCCTCA
1 TGCTGCACCA---CCTCCTCCTGATCCTCA
*
4960159 TGCTGCACCACCGCCCCCTCCTGATCCTCA
1 TGCTGCACCA---CCTCCTCCTGATCCTCA
* * * *
4960189 TGCTCCACCAACGCCTCCTGATCTTCA
1 TGCTGCACCACCTCCTCCTGATCCTCA
* *
4960216 TGCTGGACCACCGCCTCCTCCTGATCCTCG
1 TGCT-G--CACCACCTCCTCCTGATCCTCA
* *
4960246 TGCTGCACAACTACCTCCTCCTGTTCCTCG
1 TGCTGCAC--C-ACCTCCTCCTGATCCTCA
** *
4960276 TGCTGCACCATATTCTCCTGATCCTC
1 TGCTGCACCACCTCCTCCTGATCCTC
4960302 GTCAGAAGAT
Statistics
Matches: 188, Mismatches: 28, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.01
27 88 0.47
28 2 0.01
29 2 0.01
30 95 0.51
ACGTcount: A:0.15, C:0.46, G:0.13, T:0.26
Consensus pattern (27 bp):
TGCTGCACCACCTCCTCCTGATCCTCA
Found at i:4960164 original size:57 final size:56
Alignment explanation
Indices: 4960048--4960284 Score: 205
Period size: 57 Copynumber: 4.2 Consensus size: 56
4960038 CCGAGTCTCG
* ** * *
4960048 TGCTGCACCACCTTCTCCCGATCCTCATGCTGCACCA-C-CTTCTCCTGATCAC-CA
1 TGCTGCACCGCCCCCTCCTGATCCTCATGCTGCACCACCGCCTCTCCTGATC-CTCA
* *
4960102 TGCTGCACCGCCCCCTCCTGATCCCCATGATGCACCACCGCCTCTTCCTGATCCTCA
1 TGCTGCACCGCCCCCTCCTGATCCTCATGCTGCACCACCGCCTC-TCCTGATCCTCA
* * *
4960159 TGCTGCACCACCGCCCCCTCCTGATCCTCATGCTCCACCAACG-C-CTCCTGATCTTCA
1 TGCTG---CACCGCCCCCTCCTGATCCTCATGCTGCACCACCGCCTCTCCTGATCCTCA
* * * ** * *
4960216 TGCTGGACCACCGCCTCCTCCTGATCCTCGTGCTGCACAACTACCTCCTCCTGTTCCTCG
1 TGCT-G--CACCGCCCCCTCCTGATCCTCATGCTGCACCACCGCCT-CTCCTGATCCTCA
4960276 TGCTGCACC
1 TGCTGCACC
4960285 ATATTCTCCT
Statistics
Matches: 150, Mismatches: 22, Indels: 19
0.79 0.12 0.10
Matches are distributed among these distances:
54 31 0.21
55 1 0.01
56 4 0.03
57 64 0.43
58 3 0.02
59 2 0.01
60 45 0.30
ACGTcount: A:0.14, C:0.47, G:0.14, T:0.24
Consensus pattern (56 bp):
TGCTGCACCGCCCCCTCCTGATCCTCATGCTGCACCACCGCCTCTCCTGATCCTCA
Found at i:4960298 original size:87 final size:87
Alignment explanation
Indices: 4960053--4960285 Score: 231
Period size: 87 Copynumber: 2.7 Consensus size: 87
4960043 TCTCGTGCTG
* * * ** * **
4960053 CACCACCTTCTCCCGATCCTCATGCTG--C-ACCACCTTCTCCTGATCAC-CATGCTGCACCGCC
1 CACCGCCTCCTCCTGATCCTCATGCTGCACAACCACCCCCTCCTGATC-CTCATGCTCCACCAAC
*
4960114 CCCTCCTGATCCCCATGATGCAC
65 GCCTCCTGATCCCCATGATGCAC
* * *
4960137 CACCGCCTCTTCCTGATCCTCATGCTGCACCACCGCCCCCTCCTGATCCTCATGCTCCACCAACG
1 CACCGCCTCCTCCTGATCCTCATGCTGCACAACCACCCCCTCCTGATCCTCATGCTCCACCAACG
** * *
4960202 CCTCCTGATCTTCATGCTGGAC
66 CCTCCTGATCCCCATGATGCAC
* * * * * *
4960224 CACCGCCTCCTCCTGATCCTCGTGCTGCACAACTACCTCCTCCTGTTCCTCGTGCTGCACCA
1 CACCGCCTCCTCCTGATCCTCATGCTGCACAACCACCCCCTCCTGATCCTCATGCTCCACCA
4960286 TATTCTCCTG
Statistics
Matches: 121, Mismatches: 24, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
84 23 0.19
86 2 0.02
87 96 0.79
ACGTcount: A:0.15, C:0.48, G:0.13, T:0.24
Consensus pattern (87 bp):
CACCGCCTCCTCCTGATCCTCATGCTGCACAACCACCCCCTCCTGATCCTCATGCTCCACCAACG
CCTCCTGATCCCCATGATGCAC
Found at i:4972965 original size:17 final size:17
Alignment explanation
Indices: 4972937--4972971 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
4972927 ATTATTATGT
4972937 TTTTAAAAATATA-AAA
1 TTTTAAAAATATATAAA
4972953 TTTTAAAATATATATAAA
1 TTTTAAAA-ATATATAAA
4972971 T
1 T
4972972 ATAACACATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 5 0.29
18 4 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTTAAAAATATATAAA
Found at i:4979066 original size:2 final size:2
Alignment explanation
Indices: 4979059--4979091 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4979049 CCCAAAAGCA
4979059 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4979092 AGGATAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4982169 original size:228 final size:228
Alignment explanation
Indices: 4981752--4982890 Score: 1352
Period size: 228 Copynumber: 5.0 Consensus size: 228
4981742 TTCCATACAG
* * * * * * * * *
4981752 ATGCAAATTTTCGTCAAGACCCTCACTGGCAAGACCATCACCCTT-GAGGTGGAAAGTTCTGATA
1 ATGCAAATTTTTGTGAAGACACTCACTGGGAAGACCATCA-CCTTGGAGGTTGAGAGCTCAGACA
* * * * * * * *
4981816 CAATCGACAATGTGAAGGCCAAGATCCAAGACAAGGAGGGAATCCCTCCAGACCAACAGAGGCTT
65 CGATTGACAATGTTAAGGCCAAGATTCAGGACAAGGAGGGTATCCCCCCAGACCAGCAGAGG-TT
* * * * * * *
4981881 -ATCTTTGCTGGTAAACAGCTGGAGGATGGCCGCACCCTT-GCTGACTACAACATTCAGAAGGAA
129 GATTTTTGCTGGTAAGCAACTGGAGGATGGGCGCA-CCTTGGCCGACTATAACATCCAGAAGGAA
* * ** *
4981944 TCCACACTCCACTTGGTCCTTCGAT-TGAGGGGTGGT
193 TCCACCCTCCACTTGGTGCTTCG-TCTTCGTGGTGGT
* * * * * * * * *
4981980 ATGCAAATTTTTGTTAAGACCCTCACCGGAAAGACCATTACATTGGAGGTGGAGAGTTCAGATAC
1 ATGCAAATTTTTGTGAAGACACTCACTGGGAAGACCATCACCTTGGAGGTTGAGAGCTCAGACAC
* * *
4982045 CATTGACAATGTAAAGGCAAAGATTCAGGACAAGGAGGGTATCCCCCCAGACCAGCAGAGGTTGA
66 GATTGACAATGTTAAGGCCAAGATTCAGGACAAGGAGGGTATCCCCCCAGACCAGCAGAGGTTGA
* * * *
4982110 TTTTTGCTGGTAAGCAACTGGAAGATGGCCGCACATTGGCCGACTATAACATCCAGAAGGAGTCC
131 TTTTTGCTGGTAAGCAACTGGAGGATGGGCGCACCTTGGCCGACTATAACATCCAGAAGGAATCC
4982175 ACCCTCCACTTGGTGCTTCGTCTTCGTGGTGGT
196 ACCCTCCACTTGGTGCTTCGTCTTCGTGGTGGT
* * * * * *
4982208 ATGCAGATTTTTGTGAAGACACTTACGGGGAAGACCATCACCTTGGAAGTTGAAAGCTCGGACAC
1 ATGCAAATTTTTGTGAAGACACTCACTGGGAAGACCATCACCTTGGAGGTTGAGAGCTCAGACAC
*
4982273 GATTGACAATGTTAAGGCCAAGATTCAGGACAAGGAGGGTATCCCCCCAGATCAGCAGAGGTTGA
66 GATTGACAATGTTAAGGCCAAGATTCAGGACAAGGAGGGTATCCCCCCAGACCAGCAGAGGTTGA
* * * *
4982338 TTTTTGCTGGTAAGCAATTGGAGGACGGGCGCACCTTGGCCGACTATAACATCCAAAAGGAGTCC
131 TTTTTGCTGGTAAGCAACTGGAGGATGGGCGCACCTTGGCCGACTATAACATCCAGAAGGAATCC
*
4982403 ACCCTCCACTTGGTGCTCCGTCTTCGTGGTGGT
196 ACCCTCCACTTGGTGCTTCGTCTTCGTGGTGGT
* * *
4982436 ATGCAGATTTTCGTGAAGACACTCACTGGGAAGACCATCACCTTGGAAGTTGAGAGCTCAGACAC
1 ATGCAAATTTTTGTGAAGACACTCACTGGGAAGACCATCACCTTGGAGGTTGAGAGCTCAGACAC
* * * *
4982501 GATTGATAATGTCAAGTCCAAGATTCAGGACAAGGAGGGTATTCCCCCAGACCAGCAGAGGTTGA
66 GATTGACAATGTTAAGGCCAAGATTCAGGACAAGGAGGGTATCCCCCCAGACCAGCAGAGGTTGA
* * *
4982566 TTTTTGCTGGTAAGCAACTTGAGGATGGGCGTACCTTGGCTGACTATAACATCCAGAAGGAATCC
131 TTTTTGCTGGTAAGCAACTGGAGGATGGGCGCACCTTGGCCGACTATAACATCCAGAAGGAATCC
* *
4982631 ACCCTCCACTTGGTGCTTCGCCTTCGTGGTGGG
196 ACCCTCCACTTGGTGCTTCGTCTTCGTGGTGGT
* * *
4982664 ATGCAAATTTTTGTGAAGACACTCACAGGGAAGACCATCACCCTGGAGGTTGAGAGCTCTGACAC
1 ATGCAAATTTTTGTGAAGACACTCACTGGGAAGACCATCACCTTGGAGGTTGAGAGCTCAGACAC
* * * * * * *
4982729 GATTGATAATGTTAAGGCCAAGATCCAGGATAAGGAAGGAATCCCCCCGGATCAGCAGAGGTTGA
66 GATTGACAATGTTAAGGCCAAGATTCAGGACAAGGAGGGTATCCCCCCAGACCAGCAGAGGTTGA
* * * * * * * *
4982794 TCTTTGCTGGGAAGCAACTTGAAGATGGGAGGACCCTT-GCAGACTACAACATCCAGAAGGAATC
131 TTTTTGCTGGTAAGCAACTGGAGGATGGGCGCA-CCTTGGCCGACTATAACATCCAGAAGGAATC
* ** * * * *
4982858 AACTTTGCACTTGGTCCTTCGACTCCGTGGTGG
195 CACCCTCCACTTGGTGCTTCGTCTTCGTGGTGG
4982891 CTTTTAAGTG
Statistics
Matches: 801, Mismatches: 105, Indels: 10
0.87 0.11 0.01
Matches are distributed among these distances:
227 9 0.01
228 788 0.98
229 4 0.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (228 bp):
ATGCAAATTTTTGTGAAGACACTCACTGGGAAGACCATCACCTTGGAGGTTGAGAGCTCAGACAC
GATTGACAATGTTAAGGCCAAGATTCAGGACAAGGAGGGTATCCCCCCAGACCAGCAGAGGTTGA
TTTTTGCTGGTAAGCAACTGGAGGATGGGCGCACCTTGGCCGACTATAACATCCAGAAGGAATCC
ACCCTCCACTTGGTGCTTCGTCTTCGTGGTGGT
Found at i:5012068 original size:255 final size:255
Alignment explanation
Indices: 5011617--5012123 Score: 1005
Period size: 255 Copynumber: 2.0 Consensus size: 255
5011607 ATAAACATAT
5011617 CACATTCATATTCGGTTTTCAAATAATAGTTCTTAATTATTTTATTTCAAATTTATGTAAAAGCA
1 CACATTCATATTCGGTTTTCAAATAATAGTTCTTAATTATTTTATTTCAAATTTATGTAAAAGCA
5011682 TATAAAGAAACATGATAATAGATAATTGTTTTCTCCATATTTTATCTAAACCTTGTGCTCATACA
66 TATAAAGAAACATGATAATAGATAATTGTTTTCTCCATATTTTATCTAAACCTTGTGCTCATACA
5011747 ACGGTTTCACAAAGGAAATAATACATATAAAGGAACACCGAAAAAGAAGACTGAAAGCATGGCTG
131 ACGGTTTCACAAAGGAAATAATACATATAAAGGAACACCGAAAAAGAAGACTGAAAGCATGGCTG
5011812 TAAAAGATGAAAAACCATTTATTTCATGGGATGCACATACTTAACGACACGTCAACAACA
196 TAAAAGATGAAAAACCATTTATTTCATGGGATGCACATACTTAACGACACGTCAACAACA
5011872 CACATTCATATTCGGTTTTCAAATAATAGTTCTTAATTATTTTATTTCAAATTTATGTAAAAGCA
1 CACATTCATATTCGGTTTTCAAATAATAGTTCTTAATTATTTTATTTCAAATTTATGTAAAAGCA
*
5011937 TATAAAGAAACATGATAATAGGTAATTGTTTTCTCCATATTTTATCTAAACCTTGTGCTCATACA
66 TATAAAGAAACATGATAATAGATAATTGTTTTCTCCATATTTTATCTAAACCTTGTGCTCATACA
5012002 ACGGTTTCACAAAGGAAATAATACATATAAAGGAACACCGAAAAAGAAGACTGAAAGCATGGCTG
131 ACGGTTTCACAAAGGAAATAATACATATAAAGGAACACCGAAAAAGAAGACTGAAAGCATGGCTG
5012067 TAAAAGATGAAAAACCATTTATTTCATGGGATGCACATACTTAACGACACGTCAACA
196 TAAAAGATGAAAAACCATTTATTTCATGGGATGCACATACTTAACGACACGTCAACA
5012124 GCACTTAGTA
Statistics
Matches: 251, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
255 251 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (255 bp):
CACATTCATATTCGGTTTTCAAATAATAGTTCTTAATTATTTTATTTCAAATTTATGTAAAAGCA
TATAAAGAAACATGATAATAGATAATTGTTTTCTCCATATTTTATCTAAACCTTGTGCTCATACA
ACGGTTTCACAAAGGAAATAATACATATAAAGGAACACCGAAAAAGAAGACTGAAAGCATGGCTG
TAAAAGATGAAAAACCATTTATTTCATGGGATGCACATACTTAACGACACGTCAACAACA
Found at i:5025399 original size:20 final size:20
Alignment explanation
Indices: 5025374--5025418 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
5025364 TTCGAATTTC
5025374 TATTTAA-AT-TTAATTGTAAA
1 TATTTAAGATATT-ATTGT-AA
5025394 TATTTAAGATATTATTGTAA
1 TATTTAAGATATTATTGTAA
5025414 TATTT
1 TATTT
5025419 GATTCTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 14 0.61
21 7 0.30
22 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (20 bp):
TATTTAAGATATTATTGTAA
Found at i:5027411 original size:9 final size:9
Alignment explanation
Indices: 5027392--5027425 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
5027382 ATTAGAGATA
5027392 TTAATATTTT
1 TTAATA-TTT
5027402 TTAATATTT
1 TTAATATTT
*
5027411 TTGATATTT
1 TTAATATTT
5027420 TTAATA
1 TTAATA
5027426 AATTGTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (9 bp):
TTAATATTT
Found at i:5027636 original size:78 final size:78
Alignment explanation
Indices: 5027495--5027639 Score: 204
Period size: 78 Copynumber: 1.9 Consensus size: 78
5027485 GGTAAAATTT
* * * *
5027495 AATATTAATATTTTTGATAGAAAAATAATAATTTAAATAATATTTTACTGAAAATATTAAATATT
1 AATATTAATATTTTTAATAAAAAAATAATAATTTAAATAATACTTTACTAAAAATATTAAATATT
5027560 TTCGGTAGCGCTC
66 TTCGGTAGCGCTC
* *
5027573 AATATTAATATTTTTAATAAAAAAATAATATTTTAAATTATTACTTTA-TCAAAAATATT-AATA
1 AATATTAATATTTTTAATAAAAAAATAATAATTTAAA-TAATACTTTACT-AAAAATATTAAATA
5027636 TTTT
64 TTTT
5027640 TAATAAAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
78 43 0.73
79 16 0.27
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (78 bp):
AATATTAATATTTTTAATAAAAAAATAATAATTTAAATAATACTTTACTAAAAATATTAAATATT
TTCGGTAGCGCTC
Found at i:5030458 original size:6 final size:6
Alignment explanation
Indices: 5030447--5030499 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
5030437 ACCACCTCCT
* * * * * *
5030447 TCACCA TCACCA CCACCT TCACGA TCACCA TCACCT TCATCA TCATCA
1 TCACCA TCACCA TCACCA TCACCA TCACCA TCACCA TCACCA TCACCA
5030495 TCACC
1 TCACC
5030500 TTCATCATTA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.28, C:0.47, G:0.02, T:0.23
Consensus pattern (6 bp):
TCACCA
Found at i:5030460 original size:18 final size:18
Alignment explanation
Indices: 5030437--5030533 Score: 95
Period size: 18 Copynumber: 5.4 Consensus size: 18
5030427 ACTAATTCAT
*
5030437 ACCACCTCCTTCACCATC
1 ACCACCACCTTCACCATC
*
5030455 ACCACCACCTTCACGATC
1 ACCACCACCTTCACCATC
* *
5030473 ACCATCACCTTCATCATC
1 ACCACCACCTTCACCATC
* * * *
5030491 ATCATCACCTTCATCATT
1 ACCACCACCTTCACCATC
* *
5030509 ACCACCTCTTTCACCATC
1 ACCACCACCTTCACCATC
*
5030527 ATCACCA
1 ACCACCA
5030534 TCATCTCCAC
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.27, C:0.46, G:0.01, T:0.26
Consensus pattern (18 bp):
ACCACCACCTTCACCATC
Found at i:5030527 original size:36 final size:36
Alignment explanation
Indices: 5030436--5030533 Score: 117
Period size: 36 Copynumber: 2.7 Consensus size: 36
5030426 TACTAATTCA
*
5030436 TACCACCTCCTTCACCATCACCACCACCTTCACGAT
1 TACCACCTCCTTCACCATCATCACCACCTTCACGAT
* * * * *
5030472 CACCATCACCTTCATCATCATCATCACCTTCATC-AT
1 TACCACCTCCTTCACCATCATCACCACCTTCA-CGAT
*
5030508 TACCACCTCTTTCACCATCATCACCA
1 TACCACCTCCTTCACCATCATCACCA
5030534 TCATCTCCAC
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
36 48 0.98
37 1 0.02
ACGTcount: A:0.27, C:0.46, G:0.01, T:0.27
Consensus pattern (36 bp):
TACCACCTCCTTCACCATCATCACCACCTTCACGAT
Found at i:5041265 original size:19 final size:17
Alignment explanation
Indices: 5041250--5041296 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
5041240 CTTATTATTG
5041250 CATTTAATATTTATTAAT
1 CATTTAATATTTATT-AT
5041268 CATTT--TA-TTATTA-
1 CATTTAATATTTATTAT
5041281 CATTTAATATTTATTA
1 CATTTAATATTTATTA
5041297 ATTAACTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
13 5 0.19
14 1 0.04
15 7 0.27
16 8 0.31
18 5 0.19
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.57
Consensus pattern (17 bp):
CATTTAATATTTATTAT
Found at i:5041457 original size:15 final size:15
Alignment explanation
Indices: 5041410--5041458 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
5041400 GCAAGTCATT
5041410 TAAATTGTAAAATTA
1 TAAATTGTAAAATTA
* **
5041425 T-AATTTTCAAAAAAA
1 TAAATTGT-AAAATTA
5041440 TAAATTGTAAAATTA
1 TAAATTGTAAAATTA
5041455 TAAA
1 TAAA
5041459 ATCATATCAA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
14 5 0.19
15 16 0.62
16 5 0.19
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (15 bp):
TAAATTGTAAAATTA
Found at i:5048764 original size:28 final size:26
Alignment explanation
Indices: 5048724--5048781 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
5048714 AAAAAATCGG
* *
5048724 TTTTTCCCAAATCCGAT-TTCGGATATT
1 TTTTTCCAAAATCAGATATTC-GA-ATT
5048751 TTTTTCACAAAATCAGATATTCGAATT
1 TTTTTC-CAAAATCAGATATTCGAATT
5048778 TTTT
1 TTTT
5048782 GTGCACCCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 13 0.48
28 11 0.41
29 3 0.11
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.47
Consensus pattern (26 bp):
TTTTTCCAAAATCAGATATTCGAATT
Found at i:5049818 original size:52 final size:52
Alignment explanation
Indices: 5049730--5049829 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
5049720 ACTTAGGGAG
*
5049730 TTCCGGGATTAAAATAAAATTTTATCATTCCATTAAACATTTTTATATGAAA
1 TTCCGGGATTAAAATAAAATTTTACCATTCCATTAAACATTTTTATATGAAA
* * * *
5049782 TTCCGGGGTTAAAATAAAATTTTACCATTTCGTTAAACTTTTTTATAT
1 TTCCGGGATTAAAATAAAATTTTACCATTCCATTAAACATTTTTATAT
5049830 TTTCAATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.43
Consensus pattern (52 bp):
TTCCGGGATTAAAATAAAATTTTACCATTCCATTAAACATTTTTATATGAAA
Found at i:5051277 original size:71 final size:71
Alignment explanation
Indices: 5051161--5051299 Score: 278
Period size: 71 Copynumber: 2.0 Consensus size: 71
5051151 CATTTCAGAC
5051161 ACCAATATTACTATTCAATTTTCTTGACATGTCCATCTCCAAAGCTCGTATTTGACAATCAAACT
1 ACCAATATTACTATTCAATTTTCTTGACATGTCCATCTCCAAAGCTCGTATTTGACAATCAAACT
5051226 CAAAAT
66 CAAAAT
5051232 ACCAATATTACTATTCAATTTTCTTGACATGTCCATCTCCAAAGCTCGTATTTGACAATCAAACT
1 ACCAATATTACTATTCAATTTTCTTGACATGTCCATCTCCAAAGCTCGTATTTGACAATCAAACT
5051297 CAA
66 CAA
5051300 GTCCAAATAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.34
Consensus pattern (71 bp):
ACCAATATTACTATTCAATTTTCTTGACATGTCCATCTCCAAAGCTCGTATTTGACAATCAAACT
CAAAAT
Found at i:5054140 original size:21 final size:20
Alignment explanation
Indices: 5054116--5054160 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
5054106 ACACAGTTTC
* *
5054116 CAAATTCATAACGCGATTTTT
1 CAAATTCACAACACGA-TTTT
*
5054137 CAAATTCGCAACACGATTTT
1 CAAATTCACAACACGATTTT
5054157 CAAA
1 CAAA
5054161 ATTGCAACGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (20 bp):
CAAATTCACAACACGATTTT
Found at i:5054158 original size:20 final size:20
Alignment explanation
Indices: 5054100--5054210 Score: 68
Period size: 20 Copynumber: 5.5 Consensus size: 20
5054090 AAACTCCAAT
*
5054100 TTCGCAACAC-AGTTTCCAAA
1 TTCGCAACACGA-TTTTCAAA
** *
5054120 TTCATAACGCGATTTTTCAAA
1 TTCGCAACACGA-TTTTCAAA
5054141 TTCGCAACACGATTTTCAAAA
1 TTCGCAACACGATTTTC-AAA
*
5054162 TT-GCAACGCGAATTTAT-AAA
1 TTCGCAACACG-ATTT-TCAAA
* * **
5054182 -TCGCAACGCGAATTTGTAA
1 TTCGCAACACGATTTTCAAA
5054201 TTCGCAACAC
1 TTCGCAACAC
5054211 ATAAGTCAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
18 1 0.01
19 6 0.08
20 38 0.53
21 26 0.36
22 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (20 bp):
TTCGCAACACGATTTTCAAA
Found at i:5054170 original size:41 final size:40
Alignment explanation
Indices: 5054100--5054188 Score: 94
Period size: 41 Copynumber: 2.2 Consensus size: 40
5054090 AAACTCCAAT
* *
5054100 TTCGCAACACAGTTTCCAAATTCATAACGCG-ATTTTTCAAA
1 TTCGCAACACAGTTTCAAAATTCA-AACGCGAATTTAT-AAA
*
5054141 TTCGCAACACGATTTTCAAAATTGC-AACGCGAATTTATAAA
1 TTCGCAACAC-AGTTTCAAAATT-CAAACGCGAATTTATAAA
5054182 -TCGCAAC
1 TTCGCAAC
5054189 GCGAATTTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
40 7 0.17
41 19 0.45
42 15 0.36
43 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.29
Consensus pattern (40 bp):
TTCGCAACACAGTTTCAAAATTCAAACGCGAATTTATAAA
Found at i:5054409 original size:22 final size:22
Alignment explanation
Indices: 5054384--5054426 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
5054374 CGGCGACATC
5054384 CGTCCCCATCTCCGACGAAATT
1 CGTCCCCATCTCCGACGAAATT
* *
5054406 CGTCCTCATCTCCGGCGAAAT
1 CGTCCCCATCTCCGACGAAAT
5054427 CCATCTATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.40, G:0.16, T:0.23
Consensus pattern (22 bp):
CGTCCCCATCTCCGACGAAATT
Found at i:5054816 original size:20 final size:19
Alignment explanation
Indices: 5054781--5054834 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
5054771 AATTCGCAAC
5054781 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
5054800 GCGATTTTCATTTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
*
5054820 GTGAATTTTAGTTTC
1 GCG-ATTTTAGTTTC
5054835 AGAAACTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.27
20 17 0.57
21 5 0.17
ACGTcount: A:0.13, C:0.15, G:0.22, T:0.50
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:5056226 original size:42 final size:42
Alignment explanation
Indices: 5056138--5056234 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
5056128 CCCCACTTCA
* * * * *
5056138 AGAGCCATCACCTGATCGAGTCAATTCTACAGCTCGACACCC
1 AGAGCCATCACCTGATCGAGCCAATTATACACCTCCACAACC
* * *
5056180 AGAGCCATCACCTGATCGAGCCGATTATACACCTCCATAACG
1 AGAGCCATCACCTGATCGAGCCAATTATACACCTCCACAACC
5056222 AGAGCCATCACCT
1 AGAGCCATCACCT
5056235 ATTCCATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.30, C:0.35, G:0.16, T:0.19
Consensus pattern (42 bp):
AGAGCCATCACCTGATCGAGCCAATTATACACCTCCACAACC
Found at i:5056377 original size:21 final size:21
Alignment explanation
Indices: 5056353--5056393 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5056343 GGGGAGTTAC
*
5056353 GTGATGAGGTCAGTGCTTTAT
1 GTGATGAGGTCAGTACTTTAT
*
5056374 GTGATGAGGTCGGTACTTTA
1 GTGATGAGGTCAGTACTTTA
5056394 CGTCACGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.10, G:0.34, T:0.37
Consensus pattern (21 bp):
GTGATGAGGTCAGTACTTTAT
Found at i:5056461 original size:42 final size:43
Alignment explanation
Indices: 5056415--5056510 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 43
5056405 TTGTGCATGG
* **
5056415 CGTGATGAGGTACGG-TCTTTACGTGGTGAGGTAGATGTTTTA
1 CGTGATGAGGTACGGCACTTTACGTGGTGAGGTAGATACTTTA
** * **
5056457 CGTGATGA-CAATGGCACTTTACGTGGTGAGGTATCTACTTTA
1 CGTGATGAGGTACGGCACTTTACGTGGTGAGGTAGATACTTTA
5056499 CGTGATGAGGTA
1 CGTGATGAGGTA
5056511 GTCGCTCTAC
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
41 3 0.07
42 38 0.90
43 1 0.02
ACGTcount: A:0.22, C:0.12, G:0.32, T:0.33
Consensus pattern (43 bp):
CGTGATGAGGTACGGCACTTTACGTGGTGAGGTAGATACTTTA
Found at i:5056638 original size:12 final size:12
Alignment explanation
Indices: 5056621--5056662 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
5056611 TTTTTCGGTA
5056621 TTATTTATTAAT
1 TTATTTATTAAT
* *
5056633 TTATTTACTGAT
1 TTATTTATTAAT
*
5056645 TTATATATTAAT
1 TTATTTATTAAT
5056657 TTATTT
1 TTATTT
5056663 TTAGCGGCCT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (12 bp):
TTATTTATTAAT
Found at i:5056834 original size:21 final size:21
Alignment explanation
Indices: 5056808--5056904 Score: 108
Period size: 21 Copynumber: 4.6 Consensus size: 21
5056798 TTCACCTGTC
*
5056808 ATCGTTCAAGAGACCCCTCCT
1 ATCGTTCAAGAGGCCCCTCCT
5056829 ATCGTTCAAGAGGCCCCT-CT
1 ATCGTTCAAGAGGCCCCTCCT
*
5056849 CATCGTTCAAGAGGCCCCTCCC
1 -ATCGTTCAAGAGGCCCCTCCT
* * **
5056871 ACCGTTCAATAGG-CCCTTGT
1 ATCGTTCAAGAGGCCCCTCCT
5056891 CATCGTTCAAGAGG
1 -ATCGTTCAAGAGG
5056905 TCTCTTCCAC
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
20 6 0.09
21 57 0.89
22 1 0.02
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.24
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTCCT
Found at i:5056853 original size:42 final size:42
Alignment explanation
Indices: 5056806--5056924 Score: 148
Period size: 42 Copynumber: 2.8 Consensus size: 42
5056796 GATTCACCTG
* *
5056806 TCATCGTTCAAGAGACCCCTCCTATCGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGACCCCTCCCACCGTTCAAGAGGCCCCTC
* * * *
5056848 TCATCGTTCAAGAGGCCCCTCCCACCGTTCAATAGGCCCTTG
1 TCATCGTTCAAGAGACCCCTCCCACCGTTCAAGAGGCCCCTC
** * *
5056890 TCATCGTTCAAGAGGTCTCTTCCACCGTTCAAGAG
1 TCATCGTTCAAGAGACCCCTCCCACCGTTCAAGAG
5056925 CCCGATTCAC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.21, C:0.35, G:0.18, T:0.25
Consensus pattern (42 bp):
TCATCGTTCAAGAGACCCCTCCCACCGTTCAAGAGGCCCCTC
Found at i:5056918 original size:21 final size:20
Alignment explanation
Indices: 5056810--5056924 Score: 95
Period size: 21 Copynumber: 5.5 Consensus size: 20
5056800 CACCTGTCAT
* * *
5056810 CGTTCAAGAGACCCCTCCTAT
1 CGTTCAAGAGGCCCTTCC-AC
* *
5056831 CGTTCAAGAGGCCCCTCTCAT
1 CGTTCAAGAGGCCCTTC-CAC
*
5056852 CGTTCAAGAGGCCCCTCCCAC
1 CGTTCAAGAGG-CCCTTCCAC
* * *
5056873 CGTTCAATAGGCCCTTGTCAT
1 CGTTCAAGAGGCCCTT-CCAC
*
5056894 CGTTCAAGAGGTCTCTTCCAC
1 CGTTCAAGAGG-CCCTTCCAC
5056915 CGTTCAAGAG
1 CGTTCAAGAG
5056925 CCCGATTCAC
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
20 4 0.05
21 65 0.83
22 9 0.12
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (20 bp):
CGTTCAAGAGGCCCTTCCAC
Found at i:5061078 original size:24 final size:24
Alignment explanation
Indices: 5060987--5061064 Score: 147
Period size: 24 Copynumber: 3.2 Consensus size: 24
5060977 CTGAAACATC
5060987 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
*
5061011 ATCAAAATCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
5061035 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
5061059 ATCAAA
1 ATCAAA
5061065 TTTCGAATAC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:5061855 original size:14 final size:15
Alignment explanation
Indices: 5061819--5061856 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
5061809 GAAATCATTG
5061819 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
5061834 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
5061849 AAAAATTA
1 AAAAATTA
5061857 GAGATGTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:5062040 original size:20 final size:19
Alignment explanation
Indices: 5061993--5062181 Score: 89
Period size: 20 Copynumber: 9.5 Consensus size: 19
5061983 AAAAACATTT
*
5061993 GTGTTGCGAAAATAAAA-C
1 GTGTTGCGAAATTAAAATC
* *
5062011 CTGGTGCGAAATTAAAATTC
1 GTGTTGCGAAATTAAAA-TC
5062031 GTGTTGCG-AATTCGAAAATC
1 GTGTTGCGAAATT--AAAATC
* **
5062051 GAGTTGCGAAAACAAAATTC
1 GTGTTGCGAAATTAAAA-TC
*
5062071 GCGTTGCG-AATTCAGAAATC
1 GTGTTGCGAAATT-A-AAATC
* * * *
5062091 GAGTTACGAATTTGAAATTC
1 GTGTTGCGAAATT-AAAATC
* *
5062111 AATGTTGCGAATTTGAAAATC
1 -GTGTTGCGAAATT-AAAATC
* *
5062132 GCGTTGCGAATTTAGAAA-C
1 GTGTTGCGAAATTA-AAATC
* *
5062151 TGTGTTGCGAAATTGGAATTC
1 -GTGTTGCGAAATT-AAAATC
5062172 GTGTTGCGAA
1 GTGTTGCGAA
5062182 TTTGTTGGTA
Statistics
Matches: 131, Mismatches: 26, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
18 14 0.11
19 12 0.09
20 75 0.57
21 30 0.23
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (19 bp):
GTGTTGCGAAATTAAAATC
Found at i:5062068 original size:40 final size:40
Alignment explanation
Indices: 5062015--5062161 Score: 154
Period size: 40 Copynumber: 3.6 Consensus size: 40
5062005 TAAAACCTGG
5062015 TGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCGAGT
1 TGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCGAGT
** *
5062055 TGCGAAAACAAAATTCGCGTTGCGAATTC-AGAAATCGAGT
1 TGCGAAATTAAAATTCGTGTTGCGAATTCGA-AAATCGAGT
* * * * * *
5062095 TACGAATTTGAAATTCAATGTTGCGAATTTGAAAATCGCGT
1 TGCGAAATTAAAATTC-GTGTTGCGAATTCGAAAATCGAGT
* *
5062136 TGCGAATTTAGAAACT-GTGTTGCGAA
1 TGCGAAATTA-AAATTCGTGTTGCGAA
5062162 ATTGGAATTC
Statistics
Matches: 87, Mismatches: 16, Indels: 8
0.78 0.14 0.07
Matches are distributed among these distances:
39 1 0.01
40 55 0.63
41 26 0.30
42 5 0.06
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (40 bp):
TGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCGAGT
Found at i:5062122 original size:21 final size:20
Alignment explanation
Indices: 5062015--5062185 Score: 130
Period size: 20 Copynumber: 8.5 Consensus size: 20
5062005 TAAAACCTGG
* *
5062015 TGCGAAATTAAAATTCGTGT
1 TGCGAATTTGAAATTCGTGT
* * *
5062035 TGCGAATTCGAAAATCGAGT
1 TGCGAATTTGAAATTCGTGT
**** *
5062055 TGCGAAAACAAAATTCGCGT
1 TGCGAATTTGAAATTCGTGT
* *
5062075 TGCGAATTCAGAAA-TCGAGT
1 TGCGAATT-TGAAATTCGTGT
* *
5062095 TACGAATTTGAAATTCAATGT
1 TGCGAATTTGAAATTC-GTGT
* *
5062116 TGCGAATTTGAAAATCGCGT
1 TGCGAATTTGAAATTCGTGT
*
5062136 TGCGAATTTAGAAACT-GTGT
1 TGCGAATTT-GAAATTCGTGT
* *
5062156 TGCGAAATTGGAATTCGTGT
1 TGCGAATTTGAAATTCGTGT
5062176 TGCGAATTTG
1 TGCGAATTTG
5062186 TTGGTAATTT
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
19 8 0.07
20 85 0.73
21 24 0.21
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (20 bp):
TGCGAATTTGAAATTCGTGT
Found at i:5062134 original size:61 final size:61
Alignment explanation
Indices: 5062064--5062185 Score: 158
Period size: 61 Copynumber: 2.0 Consensus size: 61
5062054 TTGCGAAAAC
*
5062064 AAAATTCGCGTTGCGAATTCAGAAA-TCGAGTTACGAATTTGAAATTCAATGTTGCGAATTTG
1 AAAATTCGCGTTGCGAATTCAGAAACT-GAGTTACGAAATTGAAATTC-ATGTTGCGAATTTG
* * * * *
5062126 AAAA-TCGCGTTGCGAATTTAGAAACTGTGTTGCGAAATTGGAATTCGTGTTGCGAATTTG
1 AAAATTCGCGTTGCGAATTCAGAAACTGAGTTACGAAATTGAAATTCATGTTGCGAATTTG
5062186 TTGGTAATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
60 13 0.25
61 35 0.66
62 5 0.09
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (61 bp):
AAAATTCGCGTTGCGAATTCAGAAACTGAGTTACGAAATTGAAATTCATGTTGCGAATTTG
Found at i:5065443 original size:16 final size:16
Alignment explanation
Indices: 5065422--5065456 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
5065412 TAACTTGGGT
*
5065422 TTTTTTAAGAAAATAA
1 TTTTTTAACAAAATAA
*
5065438 TTTTTTATCAAAATAA
1 TTTTTTAACAAAATAA
5065454 TTT
1 TTT
5065457 ATATTAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (16 bp):
TTTTTTAACAAAATAA
Found at i:5069403 original size:18 final size:17
Alignment explanation
Indices: 5069375--5069411 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
5069365 TCCCGGATTC
5069375 ACATGGCTTGCATGGCG
1 ACATGGCTTGCATGGCG
5069392 ACATGTGCTTGCATGGCG
1 ACATG-GCTTGCATGGCG
5069410 AC
1 AC
5069412 CTCTACATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.19, C:0.24, G:0.32, T:0.24
Consensus pattern (17 bp):
ACATGGCTTGCATGGCG
Found at i:5071809 original size:14 final size:14
Alignment explanation
Indices: 5071790--5071823 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5071780 CACGATACAT
5071790 TTTAAATCTTAATA
1 TTTAAATCTTAATA
* *
5071804 TTTAAATGTTAATT
1 TTTAAATCTTAATA
5071818 TTTAAA
1 TTTAAA
5071824 CTCTAAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (14 bp):
TTTAAATCTTAATA
Found at i:5076101 original size:15 final size:15
Alignment explanation
Indices: 5076077--5076112 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
5076067 ATAACATTAA
*
5076077 ATTAATTTATAAAAT
1 ATTAAATTATAAAAT
5076092 ATTAAATTATAAAAT
1 ATTAAATTATAAAAT
5076107 ATTAAA
1 ATTAAA
5076113 CGTATAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATTAAATTATAAAAT
Found at i:5077720 original size:22 final size:23
Alignment explanation
Indices: 5077685--5077732 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
5077675 CATTTAGATT
5077685 TTTAACTAATTTATAA-TTATACG
1 TTTAACTAATTTATAATTTA-ACG
*
5077708 TTTAA-TAGTTTATAATTTAACG
1 TTTAACTAATTTATAATTTAACG
5077730 TTT
1 TTT
5077733 TATAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (23 bp):
TTTAACTAATTTATAATTTAACG
Found at i:5079111 original size:84 final size:84
Alignment explanation
Indices: 5079016--5079206 Score: 285
Period size: 84 Copynumber: 2.3 Consensus size: 84
5079006 AAGAGGCTTT
* **
5079016 GGAAGTTGTAGCTCCAACTGAGGTTGTTGTGAATGGTAAGAAGATGTAGAAGGTTGCTAGTGATG
1 GGAAGTTGTAGCTCCAGCTGAGGTTGTTGTGAATGGTAAGAAGATACAGAAGGTTGCTAGTGATG
5079081 GTGA-TATGGTGCAGGCACA
66 GT-ACTATGGTGCAGGCACA
* *
5079100 GGAAGTTGTAGCTCCAGCTGAGGTTGTTGTGAATGGTAAGAAGTTACAGAAGTTTGCTAGTGATG
1 GGAAGTTGTAGCTCCAGCTGAGGTTGTTGTGAATGGTAAGAAGATACAGAAGGTTGCTAGTGATG
*
5079165 GTACTATGGTGCAGGCGCA
66 GTACTATGGTGCAGGCACA
* * *
5079184 GGAAGCTGTGGCTCTAGCTGAGG
1 GGAAGTTGTAGCTCCAGCTGAGG
5079207 CTACTGTGGC
Statistics
Matches: 97, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
83 1 0.01
84 96 0.99
ACGTcount: A:0.25, C:0.12, G:0.36, T:0.27
Consensus pattern (84 bp):
GGAAGTTGTAGCTCCAGCTGAGGTTGTTGTGAATGGTAAGAAGATACAGAAGGTTGCTAGTGATG
GTACTATGGTGCAGGCACA
Found at i:5079224 original size:84 final size:84
Alignment explanation
Indices: 5079016--5079231 Score: 236
Period size: 84 Copynumber: 2.6 Consensus size: 84
5079006 AAGAGGCTTT
* * * ** * * **
5079016 GGAAGTTGTAGCTCCAACTGAGGTTGTTGTGAATGGTAAGAAGATGTAGAAGGTTGCTAGTGATG
1 GGAAGCTGTAGCTCCAGCTGAGGCTACTGTGAATGATAAGAAGTTACAGAAGGTTGCTAGTGATG
5079081 GTGATATGGTGCAGGCACA
66 GTGATATGGTGCAGGCACA
* * ** * *
5079100 GGAAGTTGTAGCTCCAGCTGAGGTTGTTGTGAATGGTAAGAAGTTACAGAAGTTTGCTAGTGATG
1 GGAAGCTGTAGCTCCAGCTGAGGCTACTGTGAATGATAAGAAGTTACAGAAGGTTGCTAGTGATG
*
5079165 GT-ACTATGGTGCAGGCGCA
66 GTGA-TATGGTGCAGGCACA
* * **
5079184 GGAAGCTGTGGCTCTAGCTGAGGCTACTGTGGCTGATAAGAAGTTACA
1 GGAAGCTGTAGCTCCAGCTGAGGCTACTGTGAATGATAAGAAGTTACA
5079232 ACATTCTGAT
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
83 1 0.01
84 115 0.99
ACGTcount: A:0.26, C:0.12, G:0.35, T:0.27
Consensus pattern (84 bp):
GGAAGCTGTAGCTCCAGCTGAGGCTACTGTGAATGATAAGAAGTTACAGAAGGTTGCTAGTGATG
GTGATATGGTGCAGGCACA
Found at i:5088764 original size:29 final size:29
Alignment explanation
Indices: 5088722--5088833 Score: 215
Period size: 29 Copynumber: 3.9 Consensus size: 29
5088712 TACCGGGGGT
5088722 AGGTCGCCATGCACGCCCGGCGACCAACC
1 AGGTCGCCATGCACGCCCGGCGACCAACC
5088751 AGGTCGCCATGCACGCCCGGCGACCAACC
1 AGGTCGCCATGCACGCCCGGCGACCAACC
5088780 AGGTCGCCATGCACGCCCGGCGACCAACC
1 AGGTCGCCATGCACGCCCGGCGACCAACC
*
5088809 AGGTCGCCATGCACGCCCTGCGACC
1 AGGTCGCCATGCACGCCCGGCGACC
5088834 TACCCCACGA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 82 1.00
ACGTcount: A:0.20, C:0.45, G:0.28, T:0.08
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCGGCGACCAACC
Found at i:5088876 original size:30 final size:30
Alignment explanation
Indices: 5088840--5088919 Score: 133
Period size: 30 Copynumber: 2.7 Consensus size: 30
5088830 GACCTACCCC
*
5088840 ACGACCTCCATGCACGCCCATGCACGCCCA
1 ACGACCTCCATGCACGCCCAGGCACGCCCA
* *
5088870 ACGACCTCCATGCATGCCCAGGCACGTCCA
1 ACGACCTCCATGCACGCCCAGGCACGCCCA
5088900 ACGACCTCCATGCACGCCCA
1 ACGACCTCCATGCACGCCCA
5088920 ACGACCTCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.24, C:0.47, G:0.17, T:0.11
Consensus pattern (30 bp):
ACGACCTCCATGCACGCCCAGGCACGCCCA
Found at i:5088914 original size:20 final size:20
Alignment explanation
Indices: 5088891--5088939 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
5088881 GCATGCCCAG
*
5088891 GCACGTCCAACGACCTCCAT
1 GCACGCCCAACGACCTCCAT
5088911 GCACGCCCAACGACCTCCAT
1 GCACGCCCAACGACCTCCAT
5088931 GCACGCCCA
1 GCACGCCCA
5088940 GCTCGCCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.49, G:0.16, T:0.10
Consensus pattern (20 bp):
GCACGCCCAACGACCTCCAT
Done.