Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004920.1 Hibiscus syriacus cultivar Beakdansim tig00011079_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: 1590857
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 7
Found at i:818 original size:18 final size:18
Alignment explanation
Indices: 795--889 Score: 118
Period size: 18 Copynumber: 5.2 Consensus size: 18
785 TGAATATTTG
*
795 TCCCGAAGGACCACTATA
1 TCCCGAATGACCACTATA
* * *
813 TCCCGAATAACCAATATG
1 TCCCGAATGACCACTATA
* *
831 TCCCGAAGGACCACTATG
1 TCCCGAATGACCACTATA
*
849 TCTCGAATGACCACTATA
1 TCCCGAATGACCACTATA
867 TCCCGAATGACCACTATAA
1 TCCCGAATGACCACTAT-A
886 TCCC
1 TCCC
890 TCGACTCTTG
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
18 60 0.92
19 5 0.08
ACGTcount: A:0.33, C:0.33, G:0.14, T:0.21
Consensus pattern (18 bp):
TCCCGAATGACCACTATA
Found at i:836 original size:36 final size:36
Alignment explanation
Indices: 793--889 Score: 131
Period size: 36 Copynumber: 2.7 Consensus size: 36
783 ACTGAATATT
793 TGTCCCGAAGGACCACTATATCCCGAATAACCAATA
1 TGTCCCGAAGGACCACTATATCCCGAATAACCAATA
* * * *
829 TGTCCCGAAGGACCACTATGTCTCGAATGACCACTA
1 TGTCCCGAAGGACCACTATATCCCGAATAACCAATA
* *
865 TATCCCGAATGACCACTATAATCCC
1 TGTCCCGAAGGACCACTAT-ATCCC
890 TCGACTCTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 49 0.94
37 3 0.06
ACGTcount: A:0.32, C:0.32, G:0.14, T:0.22
Consensus pattern (36 bp):
TGTCCCGAAGGACCACTATATCCCGAATAACCAATA
Found at i:12591 original size:21 final size:21
Alignment explanation
Indices: 12540--12592 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
12530 ATTATGACTA
*
12540 TCGCAATGTGATTTTACAATT
1 TCGCAATGCGATTTTACAATT
** *
12561 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-ACAATT
12582 TCGCAATGCGA
1 TCGCAATGCGA
12593 ATAAGTAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTACAATT
Found at i:12607 original size:20 final size:21
Alignment explanation
Indices: 12582--12633 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
12572 TTTTCCCAAT
*
12582 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
12602 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
12623 TCGCAATGCGA
1 TCGCAATGCGA
12634 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:12647 original size:20 final size:20
Alignment explanation
Indices: 12622--12740 Score: 123
Period size: 20 Copynumber: 5.9 Consensus size: 20
12612 AATTTGGAAA
*
12622 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
12642 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
12663 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
12683 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* * *
12703 TTCGCAACGCGATTCTAACT
1 ATCGCAACGCGATACTGACT
* *
12723 TTCGCAACGCGATTCTGA
1 ATCGCAACGCGATACTGA
12741 AAATCGCAAT
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
19 2 0.02
20 68 0.78
21 15 0.17
22 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:12695 original size:41 final size:42
Alignment explanation
Indices: 12619--12735 Score: 141
Period size: 41 Copynumber: 2.9 Consensus size: 42
12609 GCGAATTTGG
* *
12619 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAAT-AC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATGAC
**
12660 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATTCTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATGAC
** * *
12702 --TTTCGCAACGCGATTCTAACTTTCGCAACGCGAT
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGAT
12736 TCTGAAAATC
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 30 0.45
41 35 0.52
42 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATGAC
Found at i:12747 original size:20 final size:20
Alignment explanation
Indices: 12599--12749 Score: 99
Period size: 20 Copynumber: 7.5 Consensus size: 20
12589 GCGAATAAGT
*
12599 AAATCGCAATGCGAATT-TGGA
1 AAATCGCAACGCG-ATTCT-GA
* *
12620 AAATCGCAATGCGATACTGA
1 AAATCGCAACGCGATTCTGA
** ** *
12640 CTATCGCAACGCGATAATACA
1 AAATCGCAACGCGATTCT-GA
*
12661 AAATCGCAACGCGATACTGA
1 AAATCGCAACGCGATTCTGA
***
12681 CTTTCGCAACGCGATTCTGA
1 AAATCGCAACGCGATTCTGA
***
12701 CTTTCGCAACGCGATTCT-A
1 AAATCGCAACGCGATTCTGA
**
12720 ACTTTCGCAACGCGATTCTGA
1 A-AATCGCAACGCGATTCTGA
12741 AAATCGCAA
1 AAATCGCAA
12750 TCATCTTTAA
Statistics
Matches: 109, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
19 1 0.01
20 76 0.70
21 32 0.29
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (20 bp):
AAATCGCAACGCGATTCTGA
Found at i:12748 original size:40 final size:40
Alignment explanation
Indices: 12618--12749 Score: 165
Period size: 40 Copynumber: 3.3 Consensus size: 40
12608 TGCGAATTTG
* * **
12618 GAAAATCGCAATGCGATACTGACTATCGCAACGCGATAAT
1 GAAAATCGCAACGCGATACTGACTTTCGCAACGCGATTCT
*
12658 ACAAAATCGCAACGCGATACTGACTTTCGCAACGCGATTCT
1 -GAAAATCGCAACGCGATACTGACTTTCGCAACGCGATTCT
*** * *
12699 GACTTTCGCAACGCGATTCTAACTTTCGCAACGCGATTCT
1 GAAAATCGCAACGCGATACTGACTTTCGCAACGCGATTCT
12739 GAAAATCGCAA
1 GAAAATCGCAA
12750 TCATCTTTAA
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 42 0.55
41 35 0.45
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.23
Consensus pattern (40 bp):
GAAAATCGCAACGCGATACTGACTTTCGCAACGCGATTCT
Found at i:13507 original size:12 final size:12
Alignment explanation
Indices: 13484--13517 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
13474 ACTATTTATT
13484 ATATTT-ATAAA
1 ATATTTAATAAA
13495 ATATTTAATAAA
1 ATATTTAATAAA
13507 ATATTTAATAA
1 ATATTTAATAA
13518 TATAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
ATATTTAATAAA
Found at i:13611 original size:19 final size:18
Alignment explanation
Indices: 13557--13605 Score: 82
Period size: 19 Copynumber: 2.7 Consensus size: 18
13547 AATATATTTA
13557 AAAACAATAAAATAAATG
1 AAAACAATAAAATAAATG
13575 AAAACATATAAAATAAATG
1 AAAACA-ATAAAATAAATG
13594 AAAA-AATAAAAT
1 AAAACAATAAAAT
13606 TAAAATCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.23
18 7 0.23
19 16 0.53
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.18
Consensus pattern (18 bp):
AAAACAATAAAATAAATG
Found at i:14454 original size:38 final size:38
Alignment explanation
Indices: 14391--14485 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 38
14381 TTAGTTTGTA
*
14391 TTTTCTCTGTTTTTTTTTCTATGTCTC-TCTCTAT-TCT-
1 TTTTCT-TTTTTTTTTTTCTATGTCTCGT-TCTATATCTC
*
14428 TTTTCTTTTTTTTTTGTCTCTCTGTCTCGTTCTATATCTC
1 TTTTCTTTTTTTTTT-T-TCTATGTCTCGTTCTATATCTC
* *
14468 TGTCCTTTTTTTTTTTTC
1 TTTTCTTTTTTTTTTTTC
14486 GCAGATGGGT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
36 8 0.16
37 7 0.14
38 16 0.33
39 5 0.10
40 13 0.27
ACGTcount: A:0.04, C:0.21, G:0.06, T:0.68
Consensus pattern (38 bp):
TTTTCTTTTTTTTTTTTCTATGTCTCGTTCTATATCTC
Found at i:14927 original size:3 final size:3
Alignment explanation
Indices: 14919--15031 Score: 190
Period size: 3 Copynumber: 37.7 Consensus size: 3
14909 AATATATATT
* *
14919 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
14967 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
15015 TAT TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
15032 TGGATAAAAA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 102 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:15480 original size:113 final size:113
Alignment explanation
Indices: 15344--16010 Score: 1185
Period size: 113 Copynumber: 5.9 Consensus size: 113
15334 TGATAGTATC
* *
15344 AAAC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* *** * * *
15408 TCATTATGAACCTTCTCTGGCAAAAATAATCCATCAAGTGATGAATTC
66 TCATTATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
* *
15456 AAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
15521 TCATTCATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
66 TCATT-ATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
15570 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
15635 TCATTATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
15683 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
15748 TCATTATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
15796 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
15861 TCATTATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
15909 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* *
15974 TCATTATGAAC-TTATCTGGCAATGAATGATCCATCAA
66 TCATTATGAACTTTCTCTGGCAATG-TTGATCCATCAA
16011 GTGGATTTGA
Statistics
Matches: 539, Mismatches: 13, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
112 16 0.03
113 419 0.78
114 104 0.19
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (113 bp):
AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
TCATTATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
Found at i:16950 original size:84 final size:84
Alignment explanation
Indices: 16757--17242 Score: 897
Period size: 84 Copynumber: 5.8 Consensus size: 84
16747 ACTGAATCAT
* *
16757 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCTAAACTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCCAAATTCAATG
*
16821 ATTG-TTCTGTCCAACCAG
66 ATTGATTATGTCCAACCAG
16839 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCCAAATTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCCAAATTCAATG
16904 ATTGATTATGTCCAACCAG
66 ATTGATTATGTCCAACCAG
16923 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCCAAATTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCCAAATTCAATG
16988 ATTGATTATGTCCAACCAG
66 ATTGATTATGTCCAACCAG
*
17007 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTCAAATTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCCAAATTCAATG
17072 ATTGATTATGTCCAACCAG
66 ATTGATTATGTCCAACCAG
*
17091 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCTAAATTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCCAAATTCAATG
*
17156 ATTG-TTCTGTCCAACCAG
66 ATTGATTATGTCCAACCAG
17174 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCCAAATTCAATG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCCAAATTCAATG
17239 ATTG
66 ATTG
17243 GACTAAGATA
Statistics
Matches: 394, Mismatches: 8, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
82 39 0.10
83 108 0.27
84 247 0.63
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.28
Consensus pattern (84 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCCAAATTCAATG
ATTGATTATGTCCAACCAG
Found at i:18386 original size:15 final size:15
Alignment explanation
Indices: 18363--18431 Score: 67
Period size: 15 Copynumber: 4.9 Consensus size: 15
18353 CCTTGACCCC
*
18363 CTTTCTTTTTCTTCT
1 CTTTTTTTTTCTTCT
* *
18378 CTTTTTTTTTATTTT
1 CTTTTTTTTTCTTCT
*
18393 CTATTTTTTTC-TCT
1 CTTTTTTTTTCTTCT
18407 C-TTTTTTTT-TTC-
1 CTTTTTTTTTCTTCT
18419 C-TTTTTTTTCTTC
1 CTTTTTTTTTCTTC
18432 AAGCATAATA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
12 9 0.20
13 12 0.27
14 3 0.07
15 21 0.47
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (15 bp):
CTTTTTTTTTCTTCT
Found at i:18417 original size:25 final size:26
Alignment explanation
Indices: 18364--18429 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 26
18354 CTTGACCCCC
* *
18364 TTTCTTTTTCTTCTCTTTTTTTTTAT
1 TTTCTTTTTTTTCTCTTCTTTTTTAT
18390 TTTCTATTTTTTTCTC-TCTTTTTT-T
1 TTTCT-TTTTTTTCTCTTCTTTTTTAT
18415 TTTCCTTTTTTTTCT
1 TTT-CTTTTTTTTCT
18430 TCAAGCATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
25 13 0.36
26 14 0.39
27 9 0.25
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (26 bp):
TTTCTTTTTTTTCTCTTCTTTTTTAT
Found at i:29043 original size:13 final size:15
Alignment explanation
Indices: 29021--29057 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
29011 TTTGACAGAA
29021 AAAT-AAATAC-TG-
1 AAATAAAATACTTGC
29033 AAATAAAATACTTGC
1 AAATAAAATACTTGC
29048 AAATAAAATA
1 AAATAAAATA
29058 AAACATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 6 0.27
14 2 0.09
15 10 0.45
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (15 bp):
AAATAAAATACTTGC
Found at i:29815 original size:13 final size:12
Alignment explanation
Indices: 29757--29829 Score: 56
Period size: 13 Copynumber: 5.8 Consensus size: 12
29747 CTTTTTCTTC
*
29757 AATATTAAAAATA
1 AATATTTAAAA-A
29770 AATATTTAAAAA
1 AATATTTAAAAA
* **
29782 AATACTATTTATTA
1 AATA-T-TTAAAAA
*
29796 TATATTTATAAAA
1 AATATTTA-AAAA
*
29809 AATATTTAATAA
1 AATATTTAAAAA
29821 AATATTTAA
1 AATATTTAA
29830 TAATATAATA
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
12 19 0.40
13 21 0.45
14 7 0.15
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (12 bp):
AATATTTAAAAA
Found at i:29824 original size:12 final size:12
Alignment explanation
Indices: 29769--29832 Score: 56
Period size: 12 Copynumber: 5.1 Consensus size: 12
29759 TATTAAAAAT
*
29769 AAATATTTAAAA
1 AAATATTTAATA
* *
29781 AAATACTATTTATT
1 AAATA-T-TTAATA
* *
29795 ATATATTTATAAA
1 AAATATTTA-ATA
29808 AAATATTTAATA
1 AAATATTTAATA
29820 AAATATTTAATA
1 AAATATTTAATA
29832 A
1 A
29833 TATAATAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
12 22 0.55
13 11 0.28
14 7 0.17
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (12 bp):
AAATATTTAATA
Found at i:29900 original size:19 final size:18
Alignment explanation
Indices: 29872--29920 Score: 82
Period size: 19 Copynumber: 2.7 Consensus size: 18
29862 AATATATTTA
29872 AAAACAATAAAATAAATG
1 AAAACAATAAAATAAATG
29890 AAAACATATAAAATAAATG
1 AAAACA-ATAAAATAAATG
29909 AAAA-AATAAAAT
1 AAAACAATAAAAT
29921 TAAAAATCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.23
18 7 0.23
19 16 0.53
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.18
Consensus pattern (18 bp):
AAAACAATAAAATAAATG
Found at i:32503 original size:21 final size:21
Alignment explanation
Indices: 32479--32539 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
32469 GAACGGTGGG
* *
32479 GGGGACTTTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
32500 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
32521 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
32540 CAGGTGAGTC
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
20 2 0.07
21 26 0.87
22 2 0.07
ACGTcount: A:0.21, C:0.11, G:0.43, T:0.25
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:32506 original size:41 final size:42
Alignment explanation
Indices: 32452--32543 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
32442 CCTCTTCAAC
* * *
32452 GATGACAGTGGCCTCTTGAACG-GTGGGGGGGACTTTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
32493 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
32535 GATGACAGG
1 GATGACAGG
32544 TGAGTCGGAC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 20 0.45
42 24 0.55
ACGTcount: A:0.21, C:0.14, G:0.42, T:0.23
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:32906 original size:20 final size:20
Alignment explanation
Indices: 32881--32933 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
32871 GCAGAATAGT
*
32881 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAA
*
32901 TTACTTTCGCAACGCGAAAA
1 TTACTTTCGCAACACGAAAA
* *
32921 TGACTATCGCAAC
1 TTACTTTCGCAAC
32934 GCGGAAATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAA
Found at i:32934 original size:20 final size:20
Alignment explanation
Indices: 32907--33021 Score: 187
Period size: 20 Copynumber: 5.8 Consensus size: 20
32897 AAACTTACTT
* *
32907 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGGAAATGGCTA
32927 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGGCTA
32947 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGGCTA
*
32967 TCGCAATGCGGAAATGGCTA
1 TCGCAACGCGGAAATGGCTA
32987 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGGCTA
*
33007 TCGCAATGC-GAAATG
1 TCGCAACGCGGAAATG
33022 AAAATCGCAA
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
19 6 0.07
20 84 0.93
ACGTcount: A:0.32, C:0.23, G:0.28, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGGAAATGGCTA
Found at i:33081 original size:19 final size:19
Alignment explanation
Indices: 33059--33142 Score: 88
Period size: 19 Copynumber: 4.6 Consensus size: 19
33049 GAAACACAAA
33059 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
33078 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
33094 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
***
33111 TCGCATTGCGATAGCCATT
1 TCGCATTGCGATTTTCATT
33130 TCCGCATTGCGAT
1 T-CGCATTGCGAT
33143 AGTCATTTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
14 6 0.11
15 3 0.06
16 4 0.07
17 4 0.07
18 3 0.06
19 23 0.43
20 11 0.20
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.42
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:33161 original size:20 final size:20
Alignment explanation
Indices: 33107--33150 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
33097 TTGCGATTTT
33107 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTGCGATAGC
*
33126 CATTTCCGCATTGCGATAGT
1 CATTTCCGCATTGCGATAGC
33146 CATTT
1 CATTT
33151 TCGTGTTGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTGCGATAGC
Found at i:33266 original size:6 final size:6
Alignment explanation
Indices: 33218--33252 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
33208 TTACTTCAAC
*
33218 CAAAAGA CAAAAA CAAAAA CAAAAC CAAAAA CAAA
1 CAAAA-A CAAAAA CAAAAA CAAAAA CAAAAA CAAA
33253 TACTAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.77, C:0.20, G:0.03, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:33731 original size:18 final size:18
Alignment explanation
Indices: 33704--33749 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
33694 GGTCGATCAA
33704 GTGATGGCTCTGGGTGAG
1 GTGATGGCTCTGGGTGAG
*
33722 GTGATAGCTCTGGGTGAG
1 GTGATGGCTCTGGGTGAG
33740 GTGATGGCTC
1 GTGATGGCTC
33750 CCGAAGTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.13, C:0.13, G:0.46, T:0.28
Consensus pattern (18 bp):
GTGATGGCTCTGGGTGAG
Found at i:35116 original size:20 final size:20
Alignment explanation
Indices: 35068--35126 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
35058 AATAGTTTCT
* *
35068 GAAAATGAAAATCGCAACAC
1 GAAAATGACAATCGCAACGC
35088 GAAAATGACAATCGCAACGC
1 GAAAATGACAATCGCAACGC
** *
35108 GAATTTGACTATCGCAACG
1 GAAAATGACAATCGCAACG
35127 AGAGAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (20 bp):
GAAAATGACAATCGCAACGC
Found at i:35704 original size:61 final size:61
Alignment explanation
Indices: 35639--35756 Score: 191
Period size: 61 Copynumber: 1.9 Consensus size: 61
35629 CGAAAGTCAG
* *
35639 TATCGCGTTGCGAAAGTAAGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGAAAGTAAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTAT
* * *
35700 TATCGCGTTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCGTTGCGAAAGTAAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
35757 CCAAATTCAC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (61 bp):
TATCGCGTTGCGAAAGTAAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTAT
Found at i:35718 original size:41 final size:41
Alignment explanation
Indices: 35599--35733 Score: 184
Period size: 41 Copynumber: 3.3 Consensus size: 41
35589 CGCTTTGAAA
*
35599 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* * *
35640 ATCGCGTTGCGA--AAGTAAGTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* * *
35680 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
35721 ATCGCATTGCGAT
1 ATCGCATTGCGAT
35734 AGTCAGTATC
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 3 0.04
40 33 0.40
41 44 0.54
42 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Found at i:35742 original size:81 final size:81
Alignment explanation
Indices: 35599--35752 Score: 236
Period size: 81 Copynumber: 1.9 Consensus size: 81
35589 CGCTTTGAAA
* *
35599 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTAAGTATCG
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCGCATTGCGAAAGTAAGTATCG
*
35664 CGTTGCGAAAGTCAGT
66 CATTGCGAAAGTCAGT
* * * * *
35680 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCG
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCGCATTGCGAAAGTAAGTATCG
35745 CATTGCGA
66 CATTGCGA
35753 TTTTCCAAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (81 bp):
ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCGCATTGCGAAAGTAAGTATCG
CATTGCGAAAGTCAGT
Found at i:35753 original size:20 final size:20
Alignment explanation
Indices: 35619--35753 Score: 164
Period size: 20 Copynumber: 6.7 Consensus size: 20
35609 GATTATGTAT
* *
35619 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
35639 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGATAGTCAG
*
35659 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
35679 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
35700 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
35720 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
35740 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
35754 TTTCCAAATT
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
19 3 0.03
20 84 0.82
21 14 0.14
22 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:35771 original size:21 final size:21
Alignment explanation
Indices: 35745--35794 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
35735 GTCAGTATCG
35745 CATTGCGATTTTCCAAATTCA
1 CATTGCGATTTTCCAAATTCA
* *
35766 CATTGCGATTTTCTAAATTCG
1 CATTGCGATTTTCCAAATTCA
*
35787 CTTTGCGA
1 CATTGCGA
35795 ATTGGGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (21 bp):
CATTGCGATTTTCCAAATTCA
Found at i:35772 original size:61 final size:61
Alignment explanation
Indices: 35646--35774 Score: 152
Period size: 61 Copynumber: 2.1 Consensus size: 61
35636 CAGTATCGCG
* * * ** * * *
35646 TTGCGAAAGTAAGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATCGCG
1 TTGCGATAGTAAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCAAATATCACA
* *
35707 TTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT-TCACA
1 TTGCGATAGTAAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CAAATATCACA
35768 TTGCGAT
1 TTGCGAT
35775 TTTCTAAATT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
61 55 0.96
62 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (61 bp):
TTGCGATAGTAAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCAAATATCACA
Found at i:35808 original size:21 final size:20
Alignment explanation
Indices: 35784--35836 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
35774 TTTTCTAAAT
*
35784 TCGCTTTGCGAATTGGGAAAA
1 TCGCATTGCGAATT-GGAAAA
**
35805 TCGCAACGCGAAATTGGAAAA
1 TCGCATTGCG-AATTGGAAAA
35826 TCGCATTGCGA
1 TCGCATTGCGA
35837 TAGTCATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 1 0.04
21 21 0.81
22 4 0.15
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (20 bp):
TCGCATTGCGAATTGGAAAA
Found at i:47402 original size:18 final size:17
Alignment explanation
Indices: 47363--47405 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
47353 ATTATATGTA
47363 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
47379 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
47397 TATTATTAT
1 TATTATTAT
47406 ACGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:47478 original size:2 final size:2
Alignment explanation
Indices: 47466--47499 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
47456 ATTTTATTAT
47466 TA TA T- 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
47500 GTTTCTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:47939 original size:36 final size:38
Alignment explanation
Indices: 47890--47965 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
47880 AGTGAGAGGG
*
47890 TAGCTTTTCTATTTT-TAAATA-TTTGTTGTATATATA
1 TAGCTTTTCTATTTTATAAATACTTTGATGTATATATA
*
47926 TAGCTTATT-TATTTTATTAATACTTTGATGTATATATA
1 TAGCTT-TTCTATTTTATAAATACTTTGATGTATATATA
47964 TA
1 TA
47966 TATATATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 12 0.34
37 7 0.20
38 16 0.46
ACGTcount: A:0.30, C:0.05, G:0.08, T:0.57
Consensus pattern (38 bp):
TAGCTTTTCTATTTTATAAATACTTTGATGTATATATA
Found at i:48045 original size:21 final size:21
Alignment explanation
Indices: 48021--48091 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
48011 ATTACTTTAC
48021 TATTTTTTTTCTTATCTTATT
1 TATTTTTTTTCTTATCTTATT
* * * *
48042 TATTTATTTTATTTTCCCT-TT
1 TATTTTTTTTCTTAT-CTTATT
*
48063 TATTTTATTCTCTTTATCTTATT
1 TATTTT-TTTTC-TTATCTTATT
*
48086 TGTTTT
1 TATTTT
48092 CTTTACCTTG
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
21 19 0.53
22 7 0.19
23 10 0.28
ACGTcount: A:0.14, C:0.11, G:0.01, T:0.73
Consensus pattern (21 bp):
TATTTTTTTTCTTATCTTATT
Found at i:52463 original size:16 final size:16
Alignment explanation
Indices: 52442--52497 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 16
52432 AATCAAGAAC
52442 AAAAAGAAAAGAAGCA
1 AAAAAGAAAAGAAGCA
* *
52458 AAAAAGAAAAAACAATAACA
1 AAAAAG--AAAA-GA-AGCA
52478 AAAAAGAAAAGAAGCA
1 AAAAAGAAAAGAAGCA
52494 AAAA
1 AAAA
52498 TCAAAAGGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 13 0.41
17 1 0.03
18 8 0.25
19 1 0.03
20 9 0.28
ACGTcount: A:0.79, C:0.07, G:0.12, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAAGAAGCA
Found at i:52472 original size:29 final size:30
Alignment explanation
Indices: 52439--52510 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 30
52429 TTCAATCAAG
52439 AACAAAAAGAAAAGAAGCAAAA-AAG-AAAA
1 AACAAAAAGAAAAGAAG-AAAAGAAGCAAAA
* *
52468 AACAATAACAAAA-AAGAAAAGAAGCAAAA
1 AACAAAAAGAAAAGAAGAAAAGAAGCAAAA
* *
52497 ATCAAAAGGAAAAG
1 AACAAAAAGAAAAG
52511 GGGTAAAAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
27 4 0.12
28 6 0.18
29 24 0.71
ACGTcount: A:0.75, C:0.08, G:0.14, T:0.03
Consensus pattern (30 bp):
AACAAAAAGAAAAGAAGAAAAGAAGCAAAA
Found at i:52503 original size:22 final size:21
Alignment explanation
Indices: 52443--52503 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 21
52433 ATCAAGAACA
*
52443 AAAAGAA-AAGAAGCAAAAAAG
1 AAAAGAACAA-AAACAAAAAAG
*
52464 AAAA-AACAATAACAAAAAAG
1 AAAAGAACAAAAACAAAAAAG
52484 AAAAGAAGCAAAAATCAAAA
1 AAAAGAA-CAAAAA-CAAAA
52504 GGAAAAGGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 15 0.45
21 8 0.24
22 5 0.15
23 5 0.15
ACGTcount: A:0.77, C:0.08, G:0.11, T:0.03
Consensus pattern (21 bp):
AAAAGAACAAAAACAAAAAAG
Found at i:53582 original size:17 final size:18
Alignment explanation
Indices: 53560--53594 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
53550 TCAACATCAA
*
53560 ATATT-GGGCATTTTTGG
1 ATATTGGGGCATCTTTGG
53577 ATATTGGGGCATCTTTGG
1 ATATTGGGGCATCTTTGG
53595 GGATTCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.17, C:0.09, G:0.31, T:0.43
Consensus pattern (18 bp):
ATATTGGGGCATCTTTGG
Found at i:54128 original size:36 final size:38
Alignment explanation
Indices: 54081--54157 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 38
54071 GTGCTCACCA
*
54081 TTGTCTCTCTTGAGACAATTTCACTT-GAAACAAA-CT
1 TTGTCTCTCTTGAGACAATTTCACTTGGAAAAAAACCT
* *
54117 TTGTCTCTCTTGAGACAGTTTCCCTTGGAAAAAAACCT
1 TTGTCTCTCTTGAGACAATTTCACTTGGAAAAAAACCT
54155 TTG
1 TTG
54158 AAATTGTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 24 0.67
37 7 0.19
38 5 0.14
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.36
Consensus pattern (38 bp):
TTGTCTCTCTTGAGACAATTTCACTTGGAAAAAAACCT
Found at i:55243 original size:106 final size:106
Alignment explanation
Indices: 55001--56074 Score: 1499
Period size: 106 Copynumber: 10.0 Consensus size: 106
54991 ATATCACGCC
* * * *
55001 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAATAAACCACTTT-T
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAA-CAATTTCC
* * * * * * *
55065 GAGTTTCATTCAGAGTCAATTTCAATTTCACAGTGAATGATATTAG
65 CA--AT--TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
55111 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* *
55176 AATTTTAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
55217 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGAGACAGCTGGTTGTCAACAAACCACTTT-T
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAA-CAATTTCC
* *
55281 CAGTTTCATCCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
65 CA-ATT--T-CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * ** *
55327 ACTCAAGACAACACAAGTTCAATTTCACAACGAAGGGACAACTGGTTGTCAACAAAATAATTTCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AAACAATTTCC
* *
55392 CAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGT
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
55434 ACTCAAGACAACACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACCACTTT-T
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAA-CAATTTCC
* * *
55498 CAGTTTCAAAGCCAATTTCAACTTCACAGCGAATGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
55540 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAGCAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
55605 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* ** * * *
55646 ACTCAAGATGACACAAGTTCAAATTCACAATGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
**
55711 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGGCATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
55752 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* * ** **
55817 CATTTCATAGCCAATTTCAACTTCACATAGAAGGGCATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
55858 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
*
55923 AATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
55964 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* * *
56029 AGTTCCAGAACCAATTTCAACTTCACAGC-AGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGA-AGGATATTGG
56070 ACTCG
1 ACTCG
56075 GAAAAATACT
Statistics
Matches: 874, Mismatches: 79, Indels: 26
0.89 0.08 0.03
Matches are distributed among these distances:
105 6 0.01
106 621 0.71
107 93 0.11
108 2 0.00
109 5 0.01
110 142 0.16
111 5 0.01
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:57403 original size:18 final size:17
Alignment explanation
Indices: 57364--57406 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
57354 ATTATATGGA
57364 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
57380 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
57398 TATTATTAT
1 TATTATTAT
57407 ACGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:57471 original size:2 final size:2
Alignment explanation
Indices: 57466--57498 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
57456 TATATTTTAT
57466 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 T
57499 GTTTCTTTAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57681 original size:2 final size:2
Alignment explanation
Indices: 57676--57704 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
57666 TTTATAACTT
57676 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
57705 TCATTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57988 original size:38 final size:36
Alignment explanation
Indices: 57904--57997 Score: 100
Period size: 38 Copynumber: 2.5 Consensus size: 36
57894 AGAGAGTAAC
* *
57904 TTTTCTATTTTTAAATATTTGTTGTATATATATAGCT
1 TTTTC-ATTTTTAAATATTTGATGTATATATATAGAT
* *
57941 TATTT-ATTTTATTAATACTTTGATGTATATATATATAT
1 T-TTTCATTTT-TAAATA-TTTGATGTATATATATAGAT
57979 TTTTCATTTTTCAAATATT
1 TTTTCATTTTT-AAATATT
57998 ACTATATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
36 5 0.11
37 12 0.26
38 30 0.64
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (36 bp):
TTTTCATTTTTAAATATTTGATGTATATATATAGAT
Found at i:61562 original size:28 final size:30
Alignment explanation
Indices: 61505--61563 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 30
61495 AAGAAGATAA
61505 AAAAGTAAAGAGATAAAGAAAAATAATGAT
1 AAAAGTAAAGAGATAAAGAAAAATAATGAT
*
61535 AAAA-TAAAGATGA-AAA-AAACATAATGAT
1 AAAAGTAAAGA-GATAAAGAAAAATAATGAT
61563 A
1 A
61564 GGACACAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 12 0.44
29 9 0.33
30 6 0.22
ACGTcount: A:0.68, C:0.02, G:0.14, T:0.17
Consensus pattern (30 bp):
AAAAGTAAAGAGATAAAGAAAAATAATGAT
Found at i:62116 original size:17 final size:18
Alignment explanation
Indices: 62080--62120 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
62070 ATATTATGTA
* *
62080 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGAAT
62098 TTTACTTTATTTAA-AAT
1 TTTACTTTATTTAAGAAT
62115 TTTACT
1 TTTACT
62121 AATATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTACTTTATTTAAGAAT
Found at i:64355 original size:26 final size:24
Alignment explanation
Indices: 64284--64355 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
64274 TTATATTTGT
64284 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
*
64309 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
64331 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
64356 GTTAGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:68393 original size:3 final size:3
Alignment explanation
Indices: 68385--68453 Score: 59
Period size: 3 Copynumber: 22.3 Consensus size: 3
68375 AAACAAAACC
* * *
68385 ATA ATA ATA ATA ATA AAA ATA ATA ATAA ATA CATA CATA CTA ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA -ATA -ATA ATA ATA ATA
* *
68433 ATA TTA ATA TTA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
68454 ATAAAAGGAA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
2 2 0.04
3 41 0.77
4 10 0.19
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:68687 original size:20 final size:21
Alignment explanation
Indices: 68664--68711 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
68654 GTTTCCAGAT
*
68664 TCGCAACGCGA-TTCTGACTA
1 TCGCAACGCGATTTCCGACTA
**
68684 TCGCATTGCGATTTTCCGACTA
1 TCGCAACGCGA-TTTCCGACTA
68706 TCGCAA
1 TCGCAA
68712 TGCAAATATG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 9 0.41
22 13 0.59
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (21 bp):
TCGCAACGCGATTTCCGACTA
Found at i:68781 original size:20 final size:20
Alignment explanation
Indices: 68664--68809 Score: 93
Period size: 20 Copynumber: 7.3 Consensus size: 20
68654 GTTTCCAGAT
*
68664 TCGCAACGCGATTCTGACTA
1 TCGCAATGCGATTCTGACTA
* *
68684 TCGCATTGCGATTTTCCGACTA
1 TCGCAATGCGA--TTCTGACTA
* * * *
68706 TCGCAATGCAAATATGTA-AA
1 TCGCAATGCGATTCTG-ACTA
* * *
68726 TCGCAATGCGAATATGTA-AA
1 TCGCAATGCGATTCTG-ACTA
* *
68746 TCACAA--CGATTATGACTA
1 TCGCAATGCGATTCTGACTA
68764 TCGCAATGCGATTCTGACTA
1 TCGCAATGCGATTCTGACTA
* * *
68784 TTGCAACGCGATTCTGACTG
1 TCGCAATGCGATTCTGACTA
68804 TCGCAA
1 TCGCAA
68810 CACTGAATTT
Statistics
Matches: 101, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
17 1 0.01
18 13 0.13
20 69 0.68
21 1 0.01
22 17 0.17
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (20 bp):
TCGCAATGCGATTCTGACTA
Found at i:69655 original size:24 final size:24
Alignment explanation
Indices: 69623--69676 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
69613 GTATTCGAAA
69623 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
69647 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
69671 TTTGAT
1 TTTGAT
69677 GATGTTTCAG
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:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:69886 original size:15 final size:15
Alignment explanation
Indices: 69866--69902 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
69856 AGAAAAAAAA
69866 GAAGAAAAAATCCCC
1 GAAGAAAAAATCCCC
*
69881 GAAG-AAAAGTCCCC
1 GAAGAAAAAATCCCC
69895 GAAGAAAA
1 GAAGAAAA
69903 TACCACAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.54, C:0.22, G:0.19, T:0.05
Consensus pattern (15 bp):
GAAGAAAAAATCCCC
Found at i:72279 original size:140 final size:140
Alignment explanation
Indices: 72027--72296 Score: 513
Period size: 140 Copynumber: 1.9 Consensus size: 140
72017 AAACGTTGTA
72027 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
*
72092 TGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
72157 TATGTGTATT
131 TATGTGTATT
*
72167 TTATGTGTAAACTTTTAACATTTTCAGTTAGGTATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
*
72232 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGACTATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
72297 CACAACGCGA
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 127 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.43
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
TATGTGTATT
Found at i:72292 original size:20 final size:20
Alignment explanation
Indices: 72267--72580 Score: 272
Period size: 20 Copynumber: 16.6 Consensus size: 20
72257 TTACACATTC
72267 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
72287 ATTTGACTATCACAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
72307 ATTTGATTATCGTAACTC-A
1 ATTTGACTATCGCAACGCGA
*
72326 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
72341 ATTTGACTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
* * *
72361 ATATGACTATCACAACGCAA
1 ATTTGACTATCGCAACGCGA
*
72381 ATTTGTCTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
72401 ATTTGACTATCGCAACG-GCT
1 ATTTGACTATCGCAACGCG-A
*
72421 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
*
72441 A----A--ATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
72455 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
72475 ATTTGAGTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
72495 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
* *
72515 GTTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
72535 A----A--ATCGCAAAGCGT
1 ATTTGACTATCGCAACGCGA
*
72549 ATTAGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
72569 A-TTGACTTTCGC
1 ATTTGACTATCGC
72581 GTTGTGATTT
Statistics
Matches: 235, Mismatches: 39, Indels: 41
0.75 0.12 0.13
Matches are distributed among these distances:
14 30 0.13
15 3 0.01
16 2 0.01
18 2 0.01
19 13 0.06
20 184 0.78
21 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:72362 original size:54 final size:53
Alignment explanation
Indices: 72275--72490 Score: 236
Period size: 54 Copynumber: 3.9 Consensus size: 53
72265 TCATTTGACT
* * *
72275 ATCGCAACGCGAATTTGACTATCACAACGCGAATTTGATTATCGTAACTCAAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAAC-CAAAA
* * * *
72329 ATCGCAACGCGAATTTGACTATCGCAACACGAATATGACTATCACAACGCAAATTTGTCT
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAAC-CAAA------A
* *
72389 ATCGCAACGCGAATTTGACTATCGCAACG-GCTATTTGACTATCGCAACGAGAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCG-AATTTGACTATCGCAACCA-AAA
* *
72443 ATCGCAACGTGAATTTGACTATCGCAACGCGAATTTGAGTATCGCAAC
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAAC
72491 GCGAATTTGA
Statistics
Matches: 136, Mismatches: 17, Indels: 18
0.80 0.10 0.11
Matches are distributed among these distances:
54 89 0.65
55 1 0.01
59 2 0.01
60 44 0.32
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (53 bp):
ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACCAAAA
Found at i:72451 original size:74 final size:74
Alignment explanation
Indices: 72329--72511 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 74
72319 TAACTCAAAA
* *
72329 ATCGCAACGCGAATTTGACTATCGCAAC-ACGAATATGACTATCACAACGCAAATTTGTCTATCG
1 ATCGCAACGCGAATTTGACTATCGCAACGA-G-A-A--A--ATCGCAACGCAAATTTGACTATCG
72393 CAACGCGAATTTGACT
59 CAACGCGAATTTGACT
* **
72409 ATCGCAACG-GCTATTTGACTATCGCAACGAGAAAATCGCAACGTGAATTTGACTATCGCAACGC
1 ATCGCAACGCG-AATTTGACTATCGCAACGAGAAAATCGCAACGCAAATTTGACTATCGCAACGC
*
72473 GAATTTGAGT
65 GAATTTGACT
*
72483 ATCGCAACGCGAATTTGATTATCGCAACG
1 ATCGCAACGCGAATTTGACTATCGCAACG
72512 GGTGTTTGAC
Statistics
Matches: 92, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
74 60 0.65
75 1 0.01
76 1 0.01
78 1 0.01
79 2 0.02
80 26 0.28
81 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (74 bp):
ATCGCAACGCGAATTTGACTATCGCAACGAGAAAATCGCAACGCAAATTTGACTATCGCAACGCG
AATTTGACT
Found at i:72467 original size:114 final size:115
Alignment explanation
Indices: 72267--72531 Score: 349
Period size: 114 Copynumber: 2.3 Consensus size: 115
72257 TTACACATTC
* * * *
72267 ATTTGACTATCGCAACGCGAATTTGACTATCACAAC-GCGAATTTGATTATCGTAACTCAAAAAT
1 ATTTGTCTATCGCAACGCGAATTTGACTATCGCAACGGCGAATTTGACTATCGCAACTCAAAAAT
72331 CGCAACGCGAATTTGACTATCGCAACACGAATATGACTATCACAACGCAA
66 CGCAACGCGAATTTGACTATCGCAACACGAATATGACTATCACAACGCAA
* *
72381 ATTTGTCTATCGCAACGCGAATTTGACTATCGCAACGGC-TATTTGACTATCGCAAC-GAGAAAA
1 ATTTGTCTATCGCAACGCGAATTTGACTATCGCAACGGCGAATTTGACTATCGCAACTCA-AAAA
* * * * * *
72444 TCGCAACGTGAATTTGACTATCGCAACGCGAATTTGAGTATCGCAACGCGA
65 TCGCAACGCGAATTTGACTATCGCAACACGAATATGACTATCACAACGCAA
* **
72495 ATTTGAT-TATCGCAACGGGTGTTTGACTATCGCAACG
1 ATTTG-TCTATCGCAACGCGAATTTGACTATCGCAACG
72532 AGAAAATCGC
Statistics
Matches: 133, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
113 1 0.01
114 129 0.97
115 3 0.02
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (115 bp):
ATTTGTCTATCGCAACGCGAATTTGACTATCGCAACGGCGAATTTGACTATCGCAACTCAAAAAT
CGCAACGCGAATTTGACTATCGCAACACGAATATGACTATCACAACGCAA
Found at i:72557 original size:94 final size:94
Alignment explanation
Indices: 72349--72580 Score: 317
Period size: 94 Copynumber: 2.5 Consensus size: 94
72339 GAATTTGACT
* * *
72349 ATCGCAACA-CGAA-TATGACTATCACAACGCAAATTTGTCTATCGCAACGCGAATTTGACTATC
1 ATCGCAA-AGCGAATTA-GACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATC
72412 GCAACGGCTATTTGACTATCGCAACGAGAAA
64 GCAACGGCTATTTGACTATCGCAACGAGAAA
* * * * *
72443 ATCGCAACGTGAATTTGACTATCGCAACGCGAATTTGAGTATCGCAACGCGAATTTGATTATCGC
1 ATCGCAAAGCGAATTAGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGC
* *
72508 AACGGGTGTTTGACTATCGCAACGAGAAA
66 AACGGCTATTTGACTATCGCAACGAGAAA
* *
72537 ATCGCAAAGCGTATTAGACTATCGCAACGCGAA-TTGACTTTCGC
1 ATCGCAAAGCGAATTAGACTATCGCAACGCGAATTTGACTATCGC
72581 GTTGTGATTT
Statistics
Matches: 120, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
93 9 0.08
94 110 0.92
95 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (94 bp):
ATCGCAAAGCGAATTAGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGC
AACGGCTATTTGACTATCGCAACGAGAAA
Found at i:72625 original size:20 final size:20
Alignment explanation
Indices: 72570--72627 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
72560 GCAACGCGAA
* *
72570 TTGACTTTCGCGTTGTGATT
1 TTGACTTTAGCGTTGCGATT
* * *
72590 TTGTCTTTCGCATTGCGATT
1 TTGACTTTAGCGTTGCGATT
*
72610 TTGAGTTTAGCGTTGCGA
1 TTGACTTTAGCGTTGCGA
72628 AAGTGTACCT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.12, C:0.16, G:0.26, T:0.47
Consensus pattern (20 bp):
TTGACTTTAGCGTTGCGATT
Found at i:73834 original size:12 final size:12
Alignment explanation
Indices: 73819--73853 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
73809 TAATCAAAAT
73819 GAAATATAAGAA
1 GAAATATAAGAA
73831 GAAATATAAGAA
1 GAAATATAAGAA
73843 GAAATATAAGA
1 GAAATATAAGA
73854 CTTACCCCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (12 bp):
GAAATATAAGAA
Found at i:74807 original size:18 final size:19
Alignment explanation
Indices: 74784--74870 Score: 113
Period size: 20 Copynumber: 4.5 Consensus size: 19
74774 TAAACTTAAA
*
74784 ATCGCAACACG-AATGACT
1 ATCGCAACGCGAAATGACT
74802 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
*
74822 ATCACAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
*
74842 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAA-ATGACT
74862 ATCGCAACG
1 ATCGCAACG
74871 AGAGAATCGC
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.16
19 2 0.03
20 50 0.81
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.17
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:74820 original size:20 final size:20
Alignment explanation
Indices: 74795--74870 Score: 125
Period size: 20 Copynumber: 3.8 Consensus size: 20
74785 TCGCAACACG
74795 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
*
74815 AATGACTATCACAACGCGAA
1 AATGACTATCGCAACGCGAA
74835 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
**
74855 TTTGACTATCGCAACG
1 AATGACTATCGCAACG
74871 AGAGAATCGC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (20 bp):
AATGACTATCGCAACGCGAA
Found at i:74937 original size:20 final size:20
Alignment explanation
Indices: 74912--74959 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
74902 TTGATTCTTT
74912 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
74932 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
74952 CGTTGCGA
1 CGTTGCGA
74960 AAGTAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:75130 original size:18 final size:18
Alignment explanation
Indices: 75107--75156 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
75097 TTTACTAAGC
75107 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
75125 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
75143 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
75157 TACGAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:76978 original size:19 final size:19
Alignment explanation
Indices: 76880--76972 Score: 107
Period size: 19 Copynumber: 4.8 Consensus size: 19
76870 AATAGTTTCT
*
76880 GAAACTTAAAATCGCAACAC
1 GAAAC-TAAAATCGCAACGC
* *
76900 GAAAATAACTATCGCAACGC
1 GAAACTAA-AATCGCAACGC
*
76920 GAAA-TGAAAATCGCAACGT
1 GAAACT-AAAATCGCAACGC
*
76939 GAAACTAAAATCGTAACGC
1 GAAACTAAAATCGCAACGC
76958 GAAACTAAAATCGCA
1 GAAACTAAAATCGCA
76973 TTGCGATTCT
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
19 42 0.68
20 20 0.32
ACGTcount: A:0.48, C:0.22, G:0.15, T:0.15
Consensus pattern (19 bp):
GAAACTAAAATCGCAACGC
Found at i:77380 original size:22 final size:22
Alignment explanation
Indices: 77349--77405 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
77339 GATGGAGATA
*
77349 GACGGATTTCGCCGGAGATGTG
1 GACGGATTTCGCCGGAGATGGG
* *
77371 GACTGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
77393 GACGGATGTCGCC
1 GACGGATTTCGCC
77406 TTAGAGAGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.18, C:0.19, G:0.40, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:77602 original size:20 final size:20
Alignment explanation
Indices: 77577--77725 Score: 129
Period size: 20 Copynumber: 7.3 Consensus size: 20
77567 GAAAATTGCA
*
77577 TTGCGATAGTCAGCATCGCG
1 TTGCGATAGTCAGAATCGCG
* *
77597 TTGCGACATTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
77617 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
* * *
77637 TTGCGATAGTCATACTCGCA
1 TTGCGATAGTCAGAATCGCG
* *
77657 TTGCGATAGTCGGAAAATCGCA
1 TTGCGATAGTC--AGAATCGCG
* * * * *
77679 ATGCGA-ATTTGGAAAATCGCA
1 TTGCGATA-GT-CAGAATCGCG
*
77700 ATGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
77720 TTGCGA
1 TTGCGA
77726 ATCTGGAAAC
Statistics
Matches: 106, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
20 75 0.71
21 17 0.16
22 14 0.13
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:77635 original size:40 final size:39
Alignment explanation
Indices: 77568--77727 Score: 158
Period size: 40 Copynumber: 3.9 Consensus size: 39
77558 TGGCACTTTG
* *
77568 AAAATTGCATTGCGATAGTCAGCATCGCGTTGCGACATTC
1 AAAATCGCATTGCGATAGTCAGAATCGCGTTGCGA-ATTC
* * *
77608 AGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATAGTC
1 AAAATCGCATTGCGATAGTCAGAATCGCGTTGCGA-ATTC
* * * ** *
77648 ATACTCGCATTGCGATAGTCGGAAAATCGCAATGCGAATTTGG
1 AAAATCGCATTGCGATAGTC--AGAATCGCGTTGCGAA-TT-C
*
77691 AAAATCGCAATGCGATAGTCAGAATCGCGTTGCGAAT
1 AAAATCGCATTGCGATAGTCAGAATCGCGTTGCGAAT
77728 CTGGAAACTG
Statistics
Matches: 96, Mismatches: 20, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
40 52 0.54
41 14 0.15
42 13 0.14
43 17 0.18
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (39 bp):
AAAATCGCATTGCGATAGTCAGAATCGCGTTGCGAATTC
Found at i:77683 original size:22 final size:22
Alignment explanation
Indices: 77652--77710 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
77642 ATAGTCATAC
*
77652 TCGCATTGCGATAGTCGGAAAA
1 TCGCAATGCGATAGTCGGAAAA
* *
77674 TCGCAATGCGA-ATTTGGAAAA
1 TCGCAATGCGATAGTCGGAAAA
77695 TCGCAATGCGATAGTC
1 TCGCAATGCGATAGTC
77711 AGAATCGCGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (22 bp):
TCGCAATGCGATAGTCGGAAAA
Found at i:79732 original size:21 final size:21
Alignment explanation
Indices: 79708--79748 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
79698 TATCTTAAGG
*
79708 GAGACAAAATTCGTTTCAAGA
1 GAGACAAAATTCATTTCAAGA
*
79729 GAGATAAAATTCATTTCAAG
1 GAGACAAAATTCATTTCAAG
79749 GAAAATGTTT
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:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (21 bp):
GAGACAAAATTCATTTCAAGA
Found at i:79824 original size:36 final size:36
Alignment explanation
Indices: 79769--80132 Score: 163
Period size: 36 Copynumber: 10.4 Consensus size: 36
79759 TCAATGTTTA
* * *
79769 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAATT
*
79805 TGTTTCAAGGGAAATTATCTCAAGAGAAACAAAATT
1 TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAATT
** * * * *
79841 CATTTTAAGGGAAATGT-TTTC-A-A-TG-----TTT
1 TGTTTCAAGGGAAAT-TATCTCAAGAGAGACAAAATT
* * * *
79869 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAA-TT
*
79907 TGTTTCAAGGGAAATTATCTAAAGAGAGACAAAATT
1 TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAATT
** * * *
79943 CATTTCAAGGGAAATGT-TTTC-A-A-TG-----TTT
1 TGTTTCAAGGGAAAT-TATCTCAAGAGAGACAAAATT
** * * *
79971 ATGTTTCAAGATAAATTGTCTCTATG-GATACAAAATTT
1 -TGTTTCAAGGGAAATTATCTC-AAGAGAGACAAAA-TT
* *
80009 TATTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAATT
** * * * * * *
80045 CATTTCAAGAGAAACTGTCTCTAGGGAGATAAAATTT
1 TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAA-TT
* * *
80082 TGTTTCGATGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAATT
**
80118 CATTTCAAGGGAAAT
1 TGTTTCAAGGGAAAT
80133 GTTTTCAATG
Statistics
Matches: 234, Mismatches: 67, Indels: 54
0.66 0.19 0.15
Matches are distributed among these distances:
28 6 0.03
29 27 0.12
30 1 0.00
32 1 0.00
33 1 0.00
34 2 0.01
35 2 0.01
36 108 0.46
37 82 0.35
38 4 0.02
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (36 bp):
TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAATT
Found at i:79936 original size:37 final size:36
Alignment explanation
Indices: 79870--79957 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 36
79860 TCAATGTTTA
* * * * *
79870 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAATTATCTAAAGAGAGACAAAA-TT
79907 TGTTTCAAGGGAAATTATCTAAAGAGAGACAAAATT
1 TGTTTCAAGGGAAATTATCTAAAGAGAGACAAAATT
**
79943 CATTTCAAGGGAAAT
1 TGTTTCAAGGGAAAT
79958 GTTTTCAATG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 15 0.34
37 29 0.66
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGGGAAATTATCTAAAGAGAGACAAAATT
Found at i:79941 original size:102 final size:102
Alignment explanation
Indices: 79723--80058 Score: 539
Period size: 102 Copynumber: 3.3 Consensus size: 102
79713 AAAATTCGTT
* * *
79723 TCAAGAGAGATAAAATTCATTTCAAGGAAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATC
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
79788 TCAAGGGAGACAAAA-TTTGTTTCAAGGGAAATTATC
66 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAATTATC
* *
79824 TCAAGAGAAACAAAATTCATTTTAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
79889 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAATTATC
66 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAATTATC
* * *
79926 TAAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGATAAATTGTC
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
* * * * *
79991 TCTATGGATACAAAATTTTATTTCAAGGGAAACTATC
66 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAATTATC
*
80028 TCAAGAGAGACAAAATTCATTTCAAGAGAAA
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAA
80059 CTGTCTCTAG
Statistics
Matches: 217, Mismatches: 17, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
101 75 0.35
102 142 0.65
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (102 bp):
TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
TCAAGGGAGACAAAATTTTGTTTCAAGGGAAATTATC
Found at i:80095 original size:73 final size:73
Alignment explanation
Indices: 79974--80131 Score: 235
Period size: 73 Copynumber: 2.2 Consensus size: 73
79964 AATGTTTATG
* * * *
79974 TTTCAAGATAAATTGTCTCTATGGATACAAAATTTTATTTCAAGGGAAACTATCTCAAGAGAGAC
1 TTTCAAGAGAAACTGTCTCTAGGGAGACAAAATTTTATTTCAAGGGAAACTATCTCAAGAGAGAC
80039 AAAATTCA
66 AAAATTCA
* * * *
80047 TTTCAAGAGAAACTGTCTCTAGGGAGATAAAATTTTGTTTCGATGGAAACTATCTCAAGAGAGAC
1 TTTCAAGAGAAACTGTCTCTAGGGAGACAAAATTTTATTTCAAGGGAAACTATCTCAAGAGAGAC
80112 AAAATTCA
66 AAAATTCA
*
80120 TTTCAAGGGAAA
1 TTTCAAGAGAAA
80132 TGTTTTCAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (73 bp):
TTTCAAGAGAAACTGTCTCTAGGGAGACAAAATTTTATTTCAAGGGAAACTATCTCAAGAGAGAC
AAAATTCA
Found at i:80325 original size:36 final size:36
Alignment explanation
Indices: 80268--80487 Score: 181
Period size: 36 Copynumber: 6.2 Consensus size: 36
80258 ATTCAAAGAT
*
80268 TTTGTTTCAAG-GAAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGAGAAAA-TGTCTCAAGAGAGACAAAA
*
80304 TTTGTTTTACGAGAAAATGTCTCAAGAGAGACAAAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGAC-AAAA
* * * *
80341 TTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
* ** *
80377 CTTTGTTTCAAG-GAAAA-----C-A-A-ATTCAAAGTT
1 -TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAA--A
* * **
80407 TTTGTTTCAAGGGAAACCGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
*
80443 TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
80479 CTTTGTTTT
1 -TTTGTTTT
80488 GAGTAAATTA
Statistics
Matches: 147, Mismatches: 22, Indels: 29
0.74 0.11 0.15
Matches are distributed among these distances:
28 5 0.03
29 12 0.08
30 5 0.03
31 1 0.01
35 1 0.01
36 66 0.45
37 52 0.35
38 5 0.03
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (36 bp):
TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
Found at i:80341 original size:37 final size:37
Alignment explanation
Indices: 80268--80487 Score: 176
Period size: 37 Copynumber: 6.2 Consensus size: 37
80258 ATTCAAAGAT
*
80268 TTTGTTTCAAG-GAAAACTGTCTCAAGAGAGAC-AAAA
1 TTTGTTTTAAGAGAAAA-TGTCTCAAGAGAGACAAAAA
*
80304 TTTGTTTTACGAGAAAATGTCTCAAGAGAGACAAAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAAA
* * * * *
80341 TTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAAAC
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAAA
* ** **
80378 TTTGTTTCAAG-GAAAA-----C-A-A-ATTCAAAGTT
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAA-AA
* * **
80407 TTTGTTTCAAGGGAAACCGTCTCAAGAGAGAC-AAAA
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAAA
* *
80443 TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAAC
1 TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAAA
80480 TTTGTTTT
1 TTTGTTTT
80488 GAGTAAATTA
Statistics
Matches: 145, Mismatches: 26, Indels: 25
0.74 0.13 0.13
Matches are distributed among these distances:
28 5 0.03
29 12 0.08
30 5 0.03
31 1 0.01
35 1 0.01
36 58 0.40
37 61 0.42
38 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (37 bp):
TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAAA
Found at i:80434 original size:139 final size:138
Alignment explanation
Indices: 80190--80478 Score: 418
Period size: 139 Copynumber: 2.1 Consensus size: 138
80180 ATTTGTTTTG
* * * * *
80190 AGAGAGACAAAACTTAGTTCCAAAAGAAACTCTCTCAAGGGGGACGAAATTCGTGTAATGTAAAA
1 AGAGAGACAAAAATTAGTTCCAAAAGAAACTCTCTCAAGAGAGACAAAATTCGTGTAATGGAAAA
* * *
80255 CATATTCAAAGATTTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATTTGTTTTACGAGAAA
66 CAAATTCAAAGATTTTGTTTCAAGGAAAACCGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAA
80320 ATGTCTCA
131 ATGTCTCA
* * * *
80328 AGAGAGACAAAAATTAGTTCTAAAAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAA-GGAA
1 AGAGAGACAAAAATTAGTTCCAAAAGAAACTCTCTCAAGAGAGACAAAA-TTCGTGT-AATGGAA
* *
80392 AACAAATTCAAAGTTTTTGTTTCAAGGGAAACCGTCTCAAGAGAGACAAAATTTGTTTTAAGAGA
64 AACAAATTCAAAGATTTTGTTTCAAGGAAAACCGTCTCAAGAGAGACAAAATTTGTTTTAAGAGA
*
80457 AACTGTCTCA
129 AAATGTCTCA
80467 AGAGAGACAAAA
1 AGAGAGACAAAA
80479 CTTTGTTTTG
Statistics
Matches: 134, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
138 43 0.32
139 89 0.66
140 2 0.01
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.25
Consensus pattern (138 bp):
AGAGAGACAAAAATTAGTTCCAAAAGAAACTCTCTCAAGAGAGACAAAATTCGTGTAATGGAAAA
CAAATTCAAAGATTTTGTTTCAAGGAAAACCGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAA
ATGTCTCA
Found at i:84425 original size:15 final size:17
Alignment explanation
Indices: 84399--84435 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
84389 GCGAATGATA
84399 AAAAATGAAAAGG-AAC
1 AAAAATGAAAAGGAAAC
84415 AAAAATG-AAAGGAAAC
1 AAAAATGAAAAGGAAAC
84431 AAAAA
1 AAAAA
84436 GTTAGTGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.73, C:0.05, G:0.16, T:0.05
Consensus pattern (17 bp):
AAAAATGAAAAGGAAAC
Found at i:85358 original size:13 final size:13
Alignment explanation
Indices: 85340--85364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85330 AATGGTTAGC
85340 ACCCTGGAACTGT
1 ACCCTGGAACTGT
85353 ACCCTGGAACTG
1 ACCCTGGAACTG
85365 CCCTTTCGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.20
Consensus pattern (13 bp):
ACCCTGGAACTGT
Found at i:85574 original size:17 final size:19
Alignment explanation
Indices: 85546--85580 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
85536 ACAGATGAAA
85546 TAAAGAAGATAAA-AAAAG
1 TAAAGAAGATAAAGAAAAG
85564 TAAAG-AGATAAAGAAAA
1 TAAAGAAGATAAAGAAAA
85581 ATAATGACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.11
Consensus pattern (19 bp):
TAAAGAAGATAAAGAAAAG
Found at i:85910 original size:21 final size:20
Alignment explanation
Indices: 85885--85936 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
85875 AGGAAAAGAA
85885 AATATATATGTAAAATAATAC
1 AATATATAT-TAAAATAATAC
* *
85906 AATATGATATTTAAATAATAT
1 AATAT-ATATTAAAATAATAC
85927 ATATATATAT
1 A-ATATATAT
85937 ATATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (20 bp):
AATATATATTAAAATAATAC
Found at i:85930 original size:2 final size:2
Alignment explanation
Indices: 85923--85947 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
85913 TATTTAAATA
85923 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 A
85948 ATAATAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:86029 original size:2 final size:2
Alignment explanation
Indices: 86022--86046 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
86012 AATAAAATAG
86022 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 A
86047 CACAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87743 original size:21 final size:21
Alignment explanation
Indices: 87719--87759 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
87709 TGTCTTAAGG
87719 GAGACAAAATTCGA-TTCAAGA
1 GAGACAAAATTC-ATTTCAAGA
87740 GAGACAAAATTCATTTCAAG
1 GAGACAAAATTCATTTCAAG
87760 GAAAATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (21 bp):
GAGACAAAATTCATTTCAAGA
Found at i:87835 original size:36 final size:36
Alignment explanation
Indices: 87783--88142 Score: 225
Period size: 36 Copynumber: 10.3 Consensus size: 36
87773 ATGTTTATGC
* *
87783 TTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGT
* **
87819 TTCAAGGGAAATTATCTCAAGAGAGACAAAATTCAT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGT
* * * * *
87855 TTTAAGGGAAA-TGTTTTC-A-A-TG-----TTTATGT
1 TTCAAGGGAAACT-ATCTCAAGAGAGACAAAATT-TGT
* *
87884 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTTGT
* **
87921 TTCAAGGGAAATTATCTCAAGAGAGACAAAATTCAT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGT
* * * *
87957 TTCAAGGGAAA-TGTTTTC-A-A-TG-----TTTATGT
1 TTCAAGGGAAACT-ATCTCAAGAGAGACAAAATT-TGT
* * * *
87986 TTCAAGAGAAACTGTCTCTAGGGAGACAAAATTTTGT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTTGT
* **
88023 TTCAAGGGAAACTATCTCAAGAGAGACAATATTCAT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGT
* * * *
88059 TTCAAGAGAAACTGTCTCTAGGGAGACAAAATTTTGT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTTGT
* * **
88096 TTCGATGGAAACTATCTCAAGAGAGACAAAATTCAT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGT
88132 TTCAAGGGAAA
1 TTCAAGGGAAA
88143 TGTTTTCAAT
Statistics
Matches: 240, Mismatches: 59, Indels: 50
0.69 0.17 0.14
Matches are distributed among these distances:
28 4 0.02
29 27 0.11
30 4 0.02
31 1 0.00
32 2 0.01
33 2 0.01
34 2 0.01
35 4 0.02
36 102 0.43
37 88 0.37
38 4 0.02
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (36 bp):
TTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGT
Found at i:87939 original size:37 final size:37
Alignment explanation
Indices: 87881--88142 Score: 208
Period size: 37 Copynumber: 7.4 Consensus size: 37
87871 TCAATGTTTA
* *
87881 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
*
87918 TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
** * * *
87954 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACT-ATCTCAAGAGAGACAAAATTT
* * * *
87982 ATGTTTCAAGAGAAACTGTCTCTAGGGAGACAAAATTT
1 -TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
*
88020 TGTTTCAAGGGAAACTATCTCAAGAGAGACAATA-TT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
** * * * *
88056 CATTTCAAGAGAAACTGTCTCTAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
* *
88093 TGTTTCGATGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
**
88129 CATTTCAAGGGAAA
1 TGTTTCAAGGGAAA
88143 TGTTTTCAAT
Statistics
Matches: 172, Mismatches: 39, Indels: 29
0.72 0.16 0.12
Matches are distributed among these distances:
28 2 0.01
29 14 0.08
30 2 0.01
32 1 0.01
33 1 0.01
34 1 0.01
35 2 0.01
36 58 0.34
37 88 0.51
38 3 0.02
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
Found at i:87950 original size:102 final size:102
Alignment explanation
Indices: 87734--88069 Score: 584
Period size: 102 Copynumber: 3.3 Consensus size: 102
87724 AAAATTCGAT
* * *
87734 TCAAGAGAGACAAAATTCATTTCAAGGAAAATGTTTTCAATGTTTATGCTTCAAGAGAAACTATC
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
87799 TCAAGGGAGACAAAA-TTTGTTTCAAGGGAAATTATC
66 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAATTATC
*
87835 TCAAGAGAGACAAAATTCATTTTAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
*
87900 TCAAGAGAGACAAAATTTTGTTTCAAGGGAAATTATC
66 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAATTATC
87937 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
* *
88002 TCTAGGGAGACAAAATTTTGTTTCAAGGGAAACTATC
66 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAATTATC
* *
88039 TCAAGAGAGACAATATTCATTTCAAGAGAAA
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAA
88070 CTGTCTCTAG
Statistics
Matches: 223, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
101 75 0.34
102 148 0.66
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (102 bp):
TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
TCAAGGGAGACAAAATTTTGTTTCAAGGGAAATTATC
Found at i:88089 original size:175 final size:174
Alignment explanation
Indices: 87883--88198 Score: 551
Period size: 175 Copynumber: 1.8 Consensus size: 174
87873 AATGTTTATG
*
87883 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAATTATCTCAAGAGAGAC
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
* *
87948 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCTAGGGAGAC
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGAC
88013 AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAATATTCA
131 AAAA-TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAATATTCA
* * * *
88058 TTTCAAGAGAAACTGTCTCTAGGGAGACAAAATTTTGTTTCGATGGAAACTATCTCAAGAGAGAC
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
*
88123 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAATTATCTCAAGGGAGAC
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGAC
88188 AAAATTTGTTT
131 AAAATTTGTTT
88199 TGAGAGAGAC
Statistics
Matches: 133, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
174 7 0.05
175 126 0.95
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (174 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGAC
AAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAATATTCA
Found at i:88106 original size:73 final size:73
Alignment explanation
Indices: 87985--88142 Score: 280
Period size: 73 Copynumber: 2.2 Consensus size: 73
87975 AATGTTTATG
87985 TTTCAAGAGAAACTGTCTCTAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
1 TTTCAAGAGAAACTGTCTCTAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
*
88050 AATATTCA
66 AAAATTCA
* *
88058 TTTCAAGAGAAACTGTCTCTAGGGAGACAAAATTTTGTTTCGATGGAAACTATCTCAAGAGAGAC
1 TTTCAAGAGAAACTGTCTCTAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
88123 AAAATTCA
66 AAAATTCA
*
88131 TTTCAAGGGAAA
1 TTTCAAGAGAAA
88143 TGTTTTCAAT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 81 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (73 bp):
TTTCAAGAGAAACTGTCTCTAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
AAAATTCA
Found at i:88338 original size:36 final size:37
Alignment explanation
Indices: 88290--88385 Score: 126
Period size: 35 Copynumber: 2.6 Consensus size: 37
88280 TTGTTTCAAG
* **
88290 GAAAATTGTCTCAAGAGAGACAAAATTTA-TTTTACGA
1 GAAAA-TGTCTCAAGAGAGACAAAATTTAGTTCTAAAA
88327 GAAAATGTCTCAAGAGAGAC--AATTTAGTTCTAAAA
1 GAAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAA
*
88362 GAAACTGTCTCAAGAGAGACAAAA
1 GAAAATGTCTCAAGAGAGACAAAA
88386 CTTTGTTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
34 6 0.12
35 24 0.46
36 15 0.29
37 7 0.13
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.24
Consensus pattern (37 bp):
GAAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAA
Found at i:88477 original size:36 final size:36
Alignment explanation
Indices: 88435--88521 Score: 138
Period size: 36 Copynumber: 2.4 Consensus size: 36
88425 AGGGAAACCT
*
88435 ACAAAATTTGTTTTAAGATAAAATGTCTCAAGAGAG
1 ACAAAATTTGTTTTAAGAGAAAATGTCTCAAGAGAG
* *
88471 ATAAAATTTGTTTTAAGAGAAATTGTCTCAAGAGAG
1 ACAAAATTTGTTTTAAGAGAAAATGTCTCAAGAGAG
88507 ACAAAACTTTGTTTT
1 ACAAAA-TTTGTTTT
88522 GAGTAAATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
36 38 0.83
37 8 0.17
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.34
Consensus pattern (36 bp):
ACAAAATTTGTTTTAAGAGAAAATGTCTCAAGAGAG
Found at i:88530 original size:36 final size:35
Alignment explanation
Indices: 88435--88535 Score: 123
Period size: 36 Copynumber: 2.8 Consensus size: 35
88425 AGGGAAACCT
* *
88435 ACAAAATTTGTTTTAAGATAAAATGTCTCAAGAGAG
1 ACAAAATTTGTTTTGAG-TAAATTGTCTCAAGAGAG
*
88471 ATAAAATTTGTTTTAAGAG-AAATTGTCTCAAGAGAG
1 ACAAAATTTGTTTT--GAGTAAATTGTCTCAAGAGAG
88507 ACAAAACTTTGTTTTGAGTAAATTAGTCT
1 ACAAAA-TTTGTTTTGAGTAAATT-GTCT
88536 TGAGCGAGGC
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
35 3 0.05
36 39 0.70
37 12 0.21
38 2 0.04
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.35
Consensus pattern (35 bp):
ACAAAATTTGTTTTGAGTAAATTGTCTCAAGAGAG
Found at i:89924 original size:95 final size:94
Alignment explanation
Indices: 89756--89937 Score: 267
Period size: 95 Copynumber: 1.9 Consensus size: 94
89746 ATATGTAAAT
* * * * *
89756 ACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGCCGGGGTGTTTAACCAATTGCCTTGGAGGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAACCGAGGCGTTTAACCAATTG-CTTGGAGGG
*
89821 ACAGCTCAAGCTTTATTGTATAGTATAATC
65 ACAACTCAAGCTTTATTGTATAGTATAATC
*
89851 ACCTTTATTAGGCTAGCTGAATATTATCCATAAAACCGAGGCGTTTAACCAATTG-TTGTAGAGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAACCGAGGCGTTTAACCAATTGCTTG--GAGG
89915 GACAACTCAAGCTTTATTGTATA
64 GACAACTCAAGCTTTATTGTATA
89938 TAAATAATAT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
93 3 0.04
95 75 0.96
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (94 bp):
ACCTTTATCAGGCTAGCTGAATATTATCCATAAAACCGAGGCGTTTAACCAATTGCTTGGAGGGA
CAACTCAAGCTTTATTGTATAGTATAATC
Found at i:93472 original size:17 final size:19
Alignment explanation
Indices: 93444--93478 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
93434 TCAAATGAAA
93444 TAAAGAAGATAAA-AAAAG
1 TAAAGAAGATAAAGAAAAG
93462 TAAAG-AGATAAAGAAAA
1 TAAAGAAGATAAAGAAAA
93479 ATAATGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.11
Consensus pattern (19 bp):
TAAAGAAGATAAAGAAAAG
Found at i:93856 original size:26 final size:26
Alignment explanation
Indices: 93819--93870 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
93809 AAAATAAATA
* *
93819 AATAAATATATATATATATATATAAT
1 AATAAATATATAGATACATATATAAT
* *
93845 AATAAATGTATAGATGCATATATAAT
1 AATAAATATATAGATACATATATAAT
93871 TAAGTATTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (26 bp):
AATAAATATATAGATACATATATAAT
Found at i:108224 original size:13 final size:13
Alignment explanation
Indices: 108206--108232 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
108196 AAATTCATGA
108206 GAATTTCTCGTAT
1 GAATTTCTCGTAT
108219 GAATTTCTCGTAT
1 GAATTTCTCGTAT
108232 G
1 G
108233 GATTATGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (13 bp):
GAATTTCTCGTAT
Found at i:114596 original size:36 final size:34
Alignment explanation
Indices: 114552--114779 Score: 159
Period size: 36 Copynumber: 6.5 Consensus size: 34
114542 CGGTTTTTCG
*
114552 AAAATATATATTCTATAATTTTGAAAATATTTTTA
1 AAAATATATATTATATAATTTTGAAAATA-TTTTA
* * *
114587 AAAACTATATAATATATAGTTTCGAAAATA--TT-
1 AAAA-TATATATTATATAATTTTGAAAATATTTTA
*
114619 ----TATATATTATATAATTTTTAAAAGTCATTTTGA
1 AAAATATATATTATATAATTTTGAAAA-T-ATTTT-A
* *
114652 AAAATATATATAATATATAGTTTTTAAAATATTTTA
1 AAAATATATAT--TATATAATTTTGAAAATATTTTA
* *
114688 AAAATTATATATAGTATATAA-TTTGAAAACATTTTG
1 AAAA-TATATAT--TATATAATTTTGAAAATATTTTA
* *
114724 AAAAT-TATAATATATAGTTTTGAAAATATTTTTGA
1 AAAATATATATTATATAATTTTGAAAATA-TTTT-A
114759 AAACATTTATATATTATATAA
1 AAA-A--TATATATTATATAA
114780 GACATTTTGA
Statistics
Matches: 152, Mismatches: 20, Indels: 38
0.72 0.10 0.18
Matches are distributed among these distances:
27 19 0.12
28 1 0.01
29 1 0.01
31 2 0.01
32 6 0.04
33 11 0.07
34 8 0.05
35 8 0.05
36 43 0.28
37 26 0.17
38 2 0.01
39 25 0.16
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (34 bp):
AAAATATATATTATATAATTTTGAAAATATTTTA
Found at i:114641 original size:27 final size:25
Alignment explanation
Indices: 114580--114641 Score: 61
Period size: 27 Copynumber: 2.4 Consensus size: 25
114570 TTTTGAAAAT
114580 ATTTTTAAAAACTATATAATATATA
1 ATTTTTAAAAACTATATAATATATA
* ** * *
114605 GTTTCGAAAATATTTATATATTATATA
1 ATTTTTAAAA-A-CTATATAATATATA
114632 ATTTTTAAAA
1 ATTTTTAAAA
114642 GTCATTTTGA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
25 7 0.26
26 1 0.04
27 19 0.70
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (25 bp):
ATTTTTAAAAACTATATAATATATA
Found at i:114668 original size:37 final size:35
Alignment explanation
Indices: 114619--114776 Score: 135
Period size: 37 Copynumber: 4.4 Consensus size: 35
114609 CGAAAATATT
* *
114619 TATATATTATATAATTTTTAAAAGTCATTTTGAAAAA
1 TATATATAATATAATTTTGAAAA-T-ATTTTGAAAAA
*
114656 TATATATAATATATAGTTTTTAAAATATTTT-AAAAA
1 TATATATAATATA-A-TTTTGAAAATATTTTGAAAAA
* *
114692 TTATATATAGTATATAA-TTTGAAAACATTTTGAAAAT
1 -TATATATA--ATATAATTTTGAAAATATTTTGAAAAA
*
114729 TATA-AT-ATATAGTTTTGAAAATATTTTTGAAAACA
1 TATATATAATATAATTTTGAAAATA-TTTTGAAAA-A
* *
114764 TTTATATATTATA
1 TATATATAATATA
114777 TAAGACATTT
Statistics
Matches: 101, Mismatches: 9, Indels: 22
0.77 0.07 0.17
Matches are distributed among these distances:
32 5 0.05
33 9 0.09
34 9 0.09
35 5 0.05
36 23 0.23
37 33 0.33
38 3 0.03
39 14 0.14
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (35 bp):
TATATATAATATAATTTTGAAAATATTTTGAAAAA
Found at i:114670 original size:39 final size:37
Alignment explanation
Indices: 114610--114779 Score: 154
Period size: 39 Copynumber: 4.6 Consensus size: 37
114600 ATATAGTTTC
* * *
114610 GAAAATATTTATATATTATATAATTTTTAAAAGTCATTTT
1 GAAAA-ATATATATAATATATAATTTTGAAAA-T-ATTTT
* *
114650 GAAAAATATATATAATATATAGTTTTTAAAATATTTT
1 GAAAAATATATATAATATATAATTTTGAAAATATTTT
* *
114687 -AAAAATTATATATAGTATATAA-TTTGAAAACATTTT
1 GAAAAA-TATATATAATATATAATTTTGAAAATATTTT
*
114723 G--AAA-AT-TATAATATATAGTTTTGAAAATATTTTT
1 GAAAAATATATATAATATATAATTTTGAAAATA-TTTT
* *
114757 GAAAACATTTATATATTATATAA
1 GAAAA-ATATATATAATATATAA
114780 GACATTTTGA
Statistics
Matches: 108, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
32 10 0.09
33 11 0.10
34 5 0.05
35 3 0.03
36 19 0.18
37 20 0.19
38 2 0.02
39 33 0.31
40 5 0.05
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (37 bp):
GAAAAATATATATAATATATAATTTTGAAAATATTTT
Found at i:114674 original size:66 final size:63
Alignment explanation
Indices: 114556--114754 Score: 188
Period size: 66 Copynumber: 3.0 Consensus size: 63
114546 TTTTCGAAAA
* * *
114556 TATATATTCTATAATTTTGAAAATATTTTTAAAAACTATATAATATATAGTTTCGAAAATATT
1 TATATATTATATAATTTTGAAAATATTTTGAAAAAATATATAATATATAGTTTCGAAAATATT
* **
114619 TATATATTATATAATTTTTAAAAGTCATTTTGAAAAATATATATAATATATAGTTTTTAAAATAT
1 TATATATTATATAATTTTGAAAA-T-ATTTTGAAAAA-ATATATAATATATAGTTTCGAAAATA-
114684 TT
62 TT
* * *
114686 TAAAAATTATATATAGTATATAATTTGAAAACATTTTG--AAAAT-TATAATATATAGTTTTGAA
1 T----A-TATAT-TA-TATA-ATTTTGAAAATATTTTGAAAAAATATATAATATATAGTTTCGAA
114748 AATATT
58 AATATT
114754 T
1 T
114755 TTGAAAACAT
Statistics
Matches: 114, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
63 21 0.18
64 1 0.01
65 10 0.09
66 23 0.20
67 3 0.03
68 3 0.03
69 22 0.19
70 2 0.02
71 4 0.04
72 5 0.04
73 8 0.07
74 4 0.04
75 8 0.07
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (63 bp):
TATATATTATATAATTTTGAAAATATTTTGAAAAAATATATAATATATAGTTTCGAAAATATT
Found at i:114824 original size:139 final size:139
Alignment explanation
Indices: 114555--114839 Score: 328
Period size: 139 Copynumber: 2.1 Consensus size: 139
114545 TTTTTCGAAA
* * *
114555 ATATATATTCTATAATTTTGAAAATATTTTTAAAAACTATATAATATATAGTTTCGAAAATATTT
1 ATATATAGTATATAATTTTGAAAACATTTTTAAAAACTATATAATATATAGTTTCGAAAATATTT
* ** * *
114620 ATATATTATATAATTTTTAAAAGTCATTTTGAAAAATATATATAATATATAGTTTTTAAAATATT
66 ATAAAACATATAATTTATAAAAGACATTTTGAAAAATATATATAATATATAGTTTTTAAAATATT
114685 TTAAAAATT
131 TTAAAAATT
* *
114694 ATATATAGTATATAA-TTTGAAAACA-TTTTGAAAA-T-TATAATATATAGTTTTGAAAATATTT
1 ATATATAGTATATAATTTTGAAAACATTTTTAAAAACTATATAATATATAGTTTCGAAAATATTT
* * * * *
114755 TTGAAAACATTTATATATTATATAAGACATTTTG-AAAATATATATAATATATATATTTTTTTAA
66 AT-AAAACATATA-AT-TTATAAAAGACATTTTGAAAAATATATAT-A-ATATATAGTTTTTAAA
** *
114819 ATATTTTTGAAGTT
126 ATATTTTAAAAATT
114833 ATATATA
1 ATATATA
114840 TTGTATATTT
Statistics
Matches: 123, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
135 26 0.21
136 7 0.06
137 21 0.17
138 24 0.20
139 45 0.37
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (139 bp):
ATATATAGTATATAATTTTGAAAACATTTTTAAAAACTATATAATATATAGTTTCGAAAATATTT
ATAAAACATATAATTTATAAAAGACATTTTGAAAAATATATATAATATATAGTTTTTAAAATATT
TTAAAAATT
Found at i:124101 original size:15 final size:16
Alignment explanation
Indices: 124076--124105 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
124066 TTGTTGTTTT
124076 TTTTTTCTTTTCTCTG
1 TTTTTTCTTTTCTCTG
124092 TTTTTT-TTTTCTCT
1 TTTTTTCTTTTCTCT
124106 CCGGTTCTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (16 bp):
TTTTTTCTTTTCTCTG
Found at i:124610 original size:3 final size:3
Alignment explanation
Indices: 124602--124681 Score: 124
Period size: 3 Copynumber: 26.7 Consensus size: 3
124592 TTAATATATT
* * * *
124602 TAA TAA TAA AAA TAA TAA TAA TAA TAT TAA TAA TGA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
124650 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
124682 TGGATAAAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:125138 original size:119 final size:119
Alignment explanation
Indices: 124927--125377 Score: 902
Period size: 119 Copynumber: 3.8 Consensus size: 119
124917 GCTCTTGATG
124927 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
124992 TCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACA
66 TCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACA
125046 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
125111 TCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACA
66 TCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACA
125165 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
125230 TCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACA
66 TCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACA
125284 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
125349 TCCTCTGGAAAAGAATGATCCATCAAGTG
66 TCCTCTGGAAAAGAATGATCCATCAAGTG
125378 GATTTGAAAT
Statistics
Matches: 332, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 332 1.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (119 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
TCCTCTGGAAAAGAATGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACA
Found at i:126246 original size:136 final size:136
Alignment explanation
Indices: 125939--126392 Score: 828
Period size: 136 Copynumber: 3.4 Consensus size: 136
125929 TACACTTCTT
* *
125939 CAGATCAAATAACTCAAAGAACACTTCCAGAAGATGTTATTCTGTCTAATCAGATCAGATAACTC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAATCAGATCAGATAACTC
* * *
126004 AAAGAACACTTCCAGAATATGCTATTGGTAAATTCATATTCCA---AATTCACTGATTGGTTTTG
66 AAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTTCATTTAATTCACTGATTGGTTTTG
126066 TTAAAC
131 TTAAAC
126072 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAATCAGATCAGATAACTC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAATCAGATCAGATAACTC
126137 AAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTTCATTTAATTCACTGATTGGTTTTG
66 AAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTTCATTTAATTCACTGATTGGTTTTG
126202 TTAAAC
131 TTAAAC
126208 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAATCAGATCAGATAACTC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAATCAGATCAGATAACTC
126273 AAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTTCATTTAATTCACTGATTGGTTTTG
66 AAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTTCATTTAATTCACTGATTGGTTTTG
126338 TTAAAC
131 TTAAAC
126344 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT-TT-TGTCTAATC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAATC
126393 CATCTTCTAA
Statistics
Matches: 313, Mismatches: 5, Indels: 5
0.97 0.02 0.02
Matches are distributed among these distances:
133 103 0.33
134 9 0.03
135 2 0.01
136 199 0.64
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (136 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAATCAGATCAGATAACTC
AAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTTCATTTAATTCACTGATTGGTTTTG
TTAAAC
Found at i:126408 original size:219 final size:221
Alignment explanation
Indices: 126122--126540 Score: 754
Period size: 219 Copynumber: 1.9 Consensus size: 221
126112 TCTGTCTAAT
* *
126122 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTTCATTTAATT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATCCATCTTTCA-TAAATT
*
126187 CACTGATTGGTTTTGTTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTG
65 CACTGATTGGTTCTGTTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTG
126252 TCTAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTTCAT
130 TCTAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTTCAT
126317 TTAATTCACTGATTGGTTTTGTTAAAC
195 TTAATTCACTGATTGGTTTTGTTAAAC
* *
126344 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT-TTTGTCTAATCCATC-TTC-TAAATT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGT-AAATCCATCTTTCATAAATT
126406 CACTGATTGGTTCTGTTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTG
65 CACTGATTGGTTCTGTTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTG
126471 TCTAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTTCAT
130 TCTAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTTCAT
126536 TTAAT
195 TTAAT
126541 GTTTGGACTG
Statistics
Matches: 191, Mismatches: 5, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
219 139 0.73
221 7 0.04
222 45 0.24
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.32
Consensus pattern (221 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATCCATCTTTCATAAATTC
ACTGATTGGTTCTGTTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGT
CTAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTTTCATT
TAATTCACTGATTGGTTTTGTTAAAC
Found at i:126446 original size:83 final size:86
Alignment explanation
Indices: 126258--126477 Score: 349
Period size: 83 Copynumber: 2.6 Consensus size: 86
126248 TCTGTCTAAT
* * * *
126258 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGT-AAATTCATCTTTCATTTAAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTTGTCTAATCCATCTTTCA-TAAAT
*
126322 TCACTGATTGGTTTTGTTAAAC
65 TCACTGATTGGTTCTGTTAAAC
126344 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT-TTTGTCTAATCCATC-TTC-TAAATT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTTGTCTAATCCATCTTTCATAAATT
126406 CACTGATTGGTTCTGTTAAAC
66 CACTGATTGGTTCTGTTAAAC
126427 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAATC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT-TGTCTAATC
126478 AGATCAGATA
Statistics
Matches: 126, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
83 63 0.50
84 2 0.02
85 16 0.13
86 45 0.36
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (86 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTTGTCTAATCCATCTTTCATAAATT
CACTGATTGGTTCTGTTAAAC
Found at i:127662 original size:6 final size:6
Alignment explanation
Indices: 127651--127704 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
127641 CTTGACCCCC
* *
127651 TTTCTT TTTCTT CTTT-TT TTTCGTT TTTC-T CTT-TT TCTCTT TTTCTT
1 TTTCTT TTTCTT -TTTCTT TTTC-TT TTTCTT TTTCTT TTTCTT TTTCTT
127698 TTTCTT T
1 TTTCTT T
127705 CTTTTCTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
5 8 0.21
6 22 0.56
7 9 0.23
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTCTT
Found at i:127679 original size:19 final size:17
Alignment explanation
Indices: 127651--127709 Score: 68
Period size: 16 Copynumber: 3.5 Consensus size: 17
127641 CTTGACCCCC
127651 TTTCTTTTTCTTCTTTTT
1 TTTCTTTTTC-TCTTTTT
127669 TTTCGTTTTTCTC-TTTT
1 TTTC-TTTTTCTCTTTTT
* *
127686 TCTCTTTTTCT-TTTTC
1 TTTCTTTTTCTCTTTTT
127702 TTTCTTTT
1 TTTCTTTT
127710 CTTCAAGCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 17 0.47
17 7 0.19
18 6 0.17
19 6 0.17
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTCTTTTTCTCTTTTT
Found at i:127685 original size:8 final size:8
Alignment explanation
Indices: 127653--127700 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
127643 TGACCCCCTT
127653 TCTTTTTC
1 TCTTTTTC
*
127661 TTCTTTTTTT
1 -TC-TTTTTC
127671 TCGTTTTTC
1 TC-TTTTTC
127680 TCTTTTTC
1 TCTTTTTC
127688 TCTTTTTC
1 TCTTTTTC
127696 T-TTTT
1 TCTTTT
127701 CTTTCTTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
7 4 0.11
8 15 0.43
9 11 0.31
10 5 0.14
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (8 bp):
TCTTTTTC
Found at i:140005 original size:16 final size:16
Alignment explanation
Indices: 139984--140014 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
139974 TGTTGTTTTT
139984 TTTTTTCTTTTCTCTG
1 TTTTTTCTTTTCTCTG
*
140000 TTTTTTTTTTTCTCT
1 TTTTTTCTTTTCTCT
140015 CCGGTTCTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTTTCTTTTCTCTG
Found at i:140518 original size:3 final size:3
Alignment explanation
Indices: 140510--140583 Score: 103
Period size: 3 Copynumber: 24.7 Consensus size: 3
140500 TTAATATATT
* * * *
140510 TAA TAA TAA AAA TAA TAA TAA TAA TAT TAA TAA TGA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
140558 TAT TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
140584 TGGATAAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:154693 original size:5 final size:5
Alignment explanation
Indices: 154685--154710 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
154675 TTTTTTTATT
154685 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
154711 TTCTAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Done.