Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 27 of 310
Found at i:7168833 original size:28 final size:28
Alignment explanation
Indices: 7168788--7168841 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
7168778 TTTTTTTATG
*
7168788 TTTTTAAAAATAATTTTAATAATTTTTAA
1 TTTTTAAAAATAAATTT-ATAATTTTTAA
7168817 TTTTT-AAAATAAATTTATAATTTTT
1 TTTTTAAAAATAAATTTATAATTTTT
7168842 TTGAACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 9 0.38
28 10 0.42
29 5 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTTTAAAAATAAATTTATAATTTTTAA
Found at i:7168842 original size:28 final size:31
Alignment explanation
Indices: 7168779--7168842 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 31
7168769 TTAAAATTAT
* *
7168779 TTTTTTATGTTTTTAAAAATAATTTTAATAA
1 TTTTTTATATTTTTAAAAATAAATTTAATAA
7168810 -TTTTTA-ATTTTT-AAAATAAATTT-ATAA
1 TTTTTTATATTTTTAAAAATAAATTTAATAA
7168837 TTTTTT
1 TTTTTT
7168843 TGAACTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 4 0.13
28 15 0.50
29 5 0.17
30 6 0.20
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (31 bp):
TTTTTTATATTTTTAAAAATAAATTTAATAA
Found at i:7168842 original size:29 final size:28
Alignment explanation
Indices: 7168777--7168855 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 28
7168767 TTTTAAAATT
*
7168777 ATTTTTTTATGTTTTTAAAAATAATTTTA
1 ATTTTTTTA-ATTTTTAAAAATAATTTTA
*
7168806 ATAATTTTTAATTTTT-AAAATAAATTTATA
1 AT-TTTTTTAATTTTTAAAAAT-AATTT-TA
7168836 ATTTTTTTGAACTTTTTAAA
1 ATTTTTTT-AA-TTTTTAAA
7168856 TTTTAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
28 5 0.12
29 17 0.41
30 12 0.29
31 5 0.12
32 2 0.05
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (28 bp):
ATTTTTTTAATTTTTAAAAATAATTTTA
Found at i:7178417 original size:33 final size:33
Alignment explanation
Indices: 7178298--7178405 Score: 180
Period size: 33 Copynumber: 3.3 Consensus size: 33
7178288 ATGCTCACTC
* *
7178298 GAGCCAATCCATCCATCACACCAATGCTCATAA
1 GAGCTAATCCAACCATCACACCAATGCTCATAA
7178331 GAGCTAATCCAACCATCACACCAATGCTCATAA
1 GAGCTAATCCAACCATCACACCAATGCTCATAA
* *
7178364 GAGCTAAACCAACCATCACACTAATGCTCATAA
1 GAGCTAATCCAACCATCACACCAATGCTCATAA
7178397 GAGCTAATC
1 GAGCTAATC
7178406 TAACTAGCAC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 70 1.00
ACGTcount: A:0.39, C:0.32, G:0.10, T:0.19
Consensus pattern (33 bp):
GAGCTAATCCAACCATCACACCAATGCTCATAA
Found at i:7181159 original size:28 final size:27
Alignment explanation
Indices: 7181119--7181172 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
7181109 ATTAATTTTT
*
7181119 AAAATTAAAAAAATAAAAAAATATTTA
1 AAAATTAAAAAAACAAAAAAATATTTA
* *
7181146 AAAATTTATAAAAACAAAAAACTATTT
1 AAAA-TTAAAAAAACAAAAAAATATTT
7181173 TTTTAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (27 bp):
AAAATTAAAAAAACAAAAAAATATTTA
Found at i:7182602 original size:11 final size:11
Alignment explanation
Indices: 7182586--7182616 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
7182576 AAGTATGGGT
7182586 AGGTATGGGAA
1 AGGTATGGGAA
*
7182597 AGGTATGGGCA
1 AGGTATGGGAA
7182608 AGGTATGGG
1 AGGTATGGG
7182617 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:7186693 original size:18 final size:18
Alignment explanation
Indices: 7186670--7186762 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
7186660 CCCAACTACT
*
7186670 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
7186688 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
7186706 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
7186724 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
7186742 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
7186760 GTA
1 GTA
7186763 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:7186722 original size:36 final size:36
Alignment explanation
Indices: 7186670--7186762 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
7186660 CCCAACTACT
*
7186670 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
7186706 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
7186742 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
7186763 AACGGTCGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:7187324 original size:11 final size:11
Alignment explanation
Indices: 7187308--7187338 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
7187298 AAGTATGGGT
7187308 AGGTATGGGAA
1 AGGTATGGGAA
*
7187319 AGGTATGGGCA
1 AGGTATGGGAA
7187330 AGGTATGGG
1 AGGTATGGG
7187339 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:7198572 original size:22 final size:22
Alignment explanation
Indices: 7198547--7198596 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
7198537 TTGCTTTACG
7198547 TACAAAAACCATTGAGGACAAA
1 TACAAAAACCATTGAGGACAAA
7198569 TACAAAAACCATTGAGGACAAA
1 TACAAAAACCATTGAGGACAAA
7198591 TACAAA
1 TACAAA
7198597 CAATATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.56, C:0.18, G:0.12, T:0.14
Consensus pattern (22 bp):
TACAAAAACCATTGAGGACAAA
Found at i:7199990 original size:11 final size:11
Alignment explanation
Indices: 7199974--7200002 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
7199964 TATAAAAATT
7199974 TTCTATTAAAA
1 TTCTATTAAAA
7199985 TTCTATTAAAA
1 TTCTATTAAAA
7199996 TTC-ATTA
1 TTCTATTA
7200003 TCAAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (11 bp):
TTCTATTAAAA
Found at i:7200175 original size:31 final size:30
Alignment explanation
Indices: 7200131--7200219 Score: 94
Period size: 31 Copynumber: 2.9 Consensus size: 30
7200121 TCAAGTTATT
7200131 AAATATTAAAATAAAAATAAAAATATAGAATC
1 AAATA-TAAAATAAAAATAAAAATATAG-ATC
*
7200163 AAA-ACTAAAATAAATAATAAAAAT-TAGATT
1 AAATA-TAAAATAAA-AATAAAAATATAGATC
*
7200193 AAATATAAAGATATAAAT-AAAATATAG
1 AAATATAAA-ATAAAAATAAAAATATAG
7200220 CAAGTCTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
29 5 0.10
30 15 0.30
31 18 0.36
32 12 0.24
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (30 bp):
AAATATAAAATAAAAATAAAAATATAGATC
Found at i:7200185 original size:19 final size:19
Alignment explanation
Indices: 7200140--7200186 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
7200130 TAAATATTAA
*
7200140 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
7200159 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
7200178 AATAAAAAT
1 AATAAAAAT
7200187 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:7200657 original size:46 final size:46
Alignment explanation
Indices: 7200605--7200752 Score: 163
Period size: 46 Copynumber: 3.2 Consensus size: 46
7200595 AGAGATCTCT
*
7200605 TTTCCAGCAACTAAACACTTCAATTTGCAGCGATAAAACATTTCAA
1 TTTCCAGCAACTAAACACTTCAATTTGCAGCGTTAAAACATTTCAA
*
7200651 TTTCCAGCAACTAAACACTTCAATTTGCAGTAC-TTAAAACATTTTAA
1 TTTCCAGCAACTAAACACTTCAATTTGCAG--CGTTAAAACATTTCAA
* * ** * * * * *
7200698 TTTACAACATTTAAGCACTTCAATTTACAGTGTTTAAACACTTCAA
1 TTTCCAGCAACTAAACACTTCAATTTGCAGCGTTAAAACATTTCAA
*
7200744 TTTGCAGCA
1 TTTCCAGCA
7200753 CTTTAACATC
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
46 48 0.56
47 36 0.42
48 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (46 bp):
TTTCCAGCAACTAAACACTTCAATTTGCAGCGTTAAAACATTTCAA
Found at i:7200699 original size:24 final size:24
Alignment explanation
Indices: 7200605--7200700 Score: 92
Period size: 23 Copynumber: 4.1 Consensus size: 24
7200595 AGAGATCTCT
*
7200605 TTTCCAGCAACT-AAACACTTCAA
1 TTTCCAGCAACTAAAACATTTCAA
* *
7200628 TTTGCAGCGA-TAAAACATTTCAA
1 TTTCCAGCAACTAAAACATTTCAA
*
7200651 TTTCCAGCAACT-AAACACTTCAA
1 TTTCCAGCAACTAAAACATTTCAA
* * *
7200674 TTTGCAG-TACTTAAAACATTTTAA
1 TTTCCAGCAAC-TAAAACATTTCAA
7200698 TTT
1 TTT
7200701 ACAACATTTA
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
22 3 0.05
23 43 0.73
24 13 0.22
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (24 bp):
TTTCCAGCAACTAAAACATTTCAA
Found at i:7200758 original size:47 final size:47
Alignment explanation
Indices: 7200616--7200758 Score: 148
Period size: 47 Copynumber: 3.1 Consensus size: 47
7200606 TTCCAGCAAC
* * *
7200616 TAAACACTTCAATTTGCAGCGATAAAACATTTCAATTTCCAGCAAC--
1 TAAACACTTCAATTTGCAGTGTTAAAACATTTCAATTTACAGC-ACTT
* * *
7200662 TAAACACTTCAATTTGCAGTACTTAAAACATTTTAATTTACAACA-TT
1 TAAACACTTCAATTTGCAGT-GTTAAAACATTTCAATTTACAGCACTT
* * * * *
7200709 TAAGCACTTCAATTTACAGTGTTTAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTGCAGTGTTAAAACATTTCAATTTACAGCACTT
7200756 TAA
1 TAA
7200759 CATCTCAATT
Statistics
Matches: 79, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
46 38 0.48
47 41 0.52
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (47 bp):
TAAACACTTCAATTTGCAGTGTTAAAACATTTCAATTTACAGCACTT
Found at i:7200760 original size:23 final size:23
Alignment explanation
Indices: 7200616--7200768 Score: 114
Period size: 23 Copynumber: 6.6 Consensus size: 23
7200606 TTCCAGCAAC
7200616 TAAACACTTCAATTTGCAGCGA-T
1 TAAACACTTCAATTTGCAGC-ACT
* * *
7200639 AAAACATTTCAATTTCCAGCAAC-
1 TAAACACTTCAATTTGCAGC-ACT
*
7200662 TAAACACTTCAATTTGCAGTACT
1 TAAACACTTCAATTTGCAGCACT
* * * * *
7200685 TAAAACATTTTAATTTACAACATT
1 T-AAACACTTCAATTTGCAGCACT
* * ***
7200709 TAAGCACTTCAATTTACAGTGTT
1 TAAACACTTCAATTTGCAGCACT
7200732 TAAACACTTCAATTTGCAGCACT
1 TAAACACTTCAATTTGCAGCACT
*
7200755 TTAACA-TCTCAATT
1 TAAACACT-TCAATT
7200769 AACAACATTT
Statistics
Matches: 100, Mismatches: 26, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
22 3 0.03
23 80 0.80
24 17 0.17
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (23 bp):
TAAACACTTCAATTTGCAGCACT
Found at i:7200853 original size:23 final size:23
Alignment explanation
Indices: 7200827--7200895 Score: 120
Period size: 23 Copynumber: 3.0 Consensus size: 23
7200817 TTCCAGACAC
7200827 TTCAATTTACAACATTTAAACAT
1 TTCAATTTACAACATTTAAACAT
7200850 TTCAATTTACAACATTTAAACAT
1 TTCAATTTACAACATTTAAACAT
*
7200873 TTCAATTTACAGCATTTTAAACA
1 TTCAATTTACAACA-TTTAAACA
7200896 ATAGCAGCCA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
23 36 0.82
24 8 0.18
ACGTcount: A:0.42, C:0.17, G:0.01, T:0.39
Consensus pattern (23 bp):
TTCAATTTACAACATTTAAACAT
Found at i:7203963 original size:12 final size:12
Alignment explanation
Indices: 7203946--7203971 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7203936 AAATAGCTTG
7203946 AAGATAAAATAA
1 AAGATAAAATAA
7203958 AAGATAAAATAA
1 AAGATAAAATAA
7203970 AA
1 AA
7203972 CCGGAGAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (12 bp):
AAGATAAAATAA
Found at i:7204938 original size:15 final size:15
Alignment explanation
Indices: 7204929--7204958 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7204919 ACCCTTAAAT
7204929 CATAATCCCTAAACC
1 CATAATCCCTAAACC
*
7204944 CATAATCCATAAACC
1 CATAATCCCTAAACC
7204959 TTAAAATAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
CATAATCCCTAAACC
Found at i:7206578 original size:30 final size:30
Alignment explanation
Indices: 7206544--7206603 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
7206534 ATTCTAACTT
7206544 AGAATTCATTCAATTAAATCCCTAATTCCA
1 AGAATTCATTCAATTAAATCCCTAATTCCA
7206574 AGAATTCATTCAATTAAATCCCTAATTCCA
1 AGAATTCATTCAATTAAATCCCTAATTCCA
7206604 TAATTTTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.33
Consensus pattern (30 bp):
AGAATTCATTCAATTAAATCCCTAATTCCA
Found at i:7206787 original size:12 final size:13
Alignment explanation
Indices: 7206772--7206803 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
7206762 TTTCTCTTTT
7206772 ATTTTTCTTTC-C
1 ATTTTTCTTTCTC
7206784 ATTTTTCTTTCTC
1 ATTTTTCTTTCTC
7206797 -TTTTTCT
1 ATTTTTCT
7206804 CCCCTGCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 18 0.95
13 1 0.05
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTTTCTTTCTC
Found at i:7215841 original size:549 final size:548
Alignment explanation
Indices: 7214803--7216462 Score: 2432
Period size: 549 Copynumber: 3.0 Consensus size: 548
7214793 CTCACTATTC
**
7214803 CCTCCCTCAATTGACCATTCTCTTCGATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTTCTGG
1 CCTCCCTCAGCTGACCATTCTCTTCGATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTTCTGG
*
7214868 TTCTTTAGAGAAATGACCTCCAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTCCTG
66 TTCTTTAGAGAAATGACCTCAAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTCCTG
* * *
7214933 CAGAACTCTCTGTTGATCCTCAGTCTTGCTTACCATCTCTTCTTTTGCCTTTTCTATCTCAATCA
131 CAGAACTCTCTGTTGATCCTCGGTCTTGCTGACTATCTCTTCTTTTGCCTTTTCTATCTCAATCA
* * *
7214998 TATGATCT-GAAATAGCTTGTGTTTTACTCTCAAGCTGAACTTCAAGTTCAGCTTTCTGGCTATG
196 CATGAT-TGGAAATAGCTTGAGTTTTACTCTCAAGCTGAACTTCAAGTTCTGCTTTCTGGCTATG
* * * * * *
7215062 CATGGA-TCCCAGTTTCTGCTGCAATGTATTTATTTCATCCATCAAGCTCTTGACTTG-GTTCGA
260 CAGGGACT-CCAGCTCCTGCTGCAAAGTATTTATCTGATCCATCAAGCTCTTGACTTGAGTT-GA
** * * *
7215125 TGCTTCATCGCCTTTAACTACAATATGTTCTTCCAACTGAGCTTTCTCAGTCCGCAGCAACTCCA
323 TGCTTCATCGCCTTTAACTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTAGCGACTCCA
* * *
7215190 TGTCTCCTAGCAGATTGTTAATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTGTCTCA
388 TGTCTGCTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTCTCA
* * * *
7215255 TTATCCTCAAACTTCTTTGTGAGAGTAAAAAGTTCTTCTTGTCTCGTCTTTAATACCCTCTCGAG
453 TTATCCTCAAACTTCTTTGTGAGAGTCAAAAGTTCTTCTTGTCTCGT-TTTGATATCATCTCGAG
** *
7215320 TTCTGAAATTTGATATTGCAGTCCCATATTTT
517 TTCTGAAATTTGGGATTGCAGTCCTATATTTT
*
7215352 CCTCCCTCAGCTGACCATTCTCTTCGATTTTAGTTCTCAGGTCCTCTTCCAGTTCACCTTTCTGG
1 CCTCCCTCAGCTGACCATTCTCTTCGATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTTCTGG
7215417 TTCTTTAGAGAAATGACCTCAAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTCCTG
66 TTCTTTAGAGAAATGACCTCAAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTCCTG
*
7215482 CAGAACTCTCTGTTGATCCTCGGTCTTGCTGACTATCTCTTCTTTTGCCTTCTCTATCTCAATCA
131 CAGAACTCTCTGTTGATCCTCGGTCTTGCTGACTATCTCTTCTTTTGCCTTTTCTATCTCAATCA
* * **
7215547 CATGATTGGAAATAGCTTGAGTTTTTCTCTCAAGCTGAACTTCCAGTTCTGCTTGATGGCTATGC
196 CATGATTGGAAATAGCTTGAGTTTTACTCTCAAGCTGAACTTCAAGTTCTGCTTTCTGGCTATGC
* *
7215612 AGGGACTCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATCAAGCCCTTGACCTGAGTTGATGC
261 AGGGACTCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATCAAGCTCTTGACTTGAGTTGATGC
* *
7215677 TTCATCGCCTTTCACTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTAGGGACTCCATGT
326 TTCATCGCCTTTAACTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTAGCGACTCCATGT
* * ** * *
7215742 CTGCTAGCAAATTGTTGATCTGCACTGTTAAATTCTCCACTCTAGATAGCGATTCTTTCTCGTTG
391 CTGCTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTCTCATTA
* *
7215807 TCCTCAAACTTCTCTGTGAGTGTCAAAAGTTCTTCTTGTCTCTGTTTTGATATCATCTCGAGTT-
456 TCCTCAAACTTCTTTGTGAGAGTCAAAAGTTCTTCTTGTCTC-GTTTTGATATCATCTCGAGTTC
* *
7215871 TGGAAATTTGGGATTGCAGTCCTAAACTTT
520 T-GAAATTTGGGATTGCAGTCCTATATTTT
* * * ** *
7215901 CCTCCCTCAGCTGACCATTCTCTTTGATTTTAGTTCGCAAATCCTCTTCCAACTCACCTTTCTGA
1 CCTCCCTCAGCTGACCATTCTCTTCGATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTTCTGG
* * * *
7215966 TTCTTTAAAGAATTGACATCAAATTCTAGTTCCTTCATTTGTGCCAGCAAACCCTCTTTCTCCTG
66 TTCTTTAGAGAAATGACCTCAAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTCCTG
* * **
7216031 CAGAACTCTTTGTTGATCCTCGGTCTTGCTTG-CTATCTCTTCTTTTGCATTTTCTATCTTGATC
131 CAGAACTCTCTGTTGATCCTCGGTCTTGC-TGACTATCTCTTCTTTTGCCTTTTCTATCTCAATC
* * * *
7216095 ACATGATCGGAAATAGCTCGAGTTTTACTCTCAAGCTGAACTTCAAGTTCTGCTTTCTGACTCTG
195 ACATGATTGGAAATAGCTTGAGTTTTACTCTCAAGCTGAACTTCAAGTTCTGCTTTCTGGCTATG
* * *
7216160 CAGGGACTCCAGCTCCTGCTGCAAATTTTTTATCTGATCCATCAAGCTCTTGACTTGAGTCGATG
260 CAGGGACTCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATCAAGCTCTTGACTTGAGTTGATG
** * * *
7216225 CTTCATCATCTTTTACTGCAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTAGTGACTCCATG
325 CTTCATCGCCTTTAACTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTAGCGACTCCATG
* *
7216290 TCTGCTAGCAGATTGTTGATCTGCACTGTCAGATTCTCCACTCTAGACAATGATTCTTTCTCATT
390 TCTGCTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTCTCATT
* * * * * *
7216355 ATCCTCAAATTTCTTTGCGAGAGTCAAAAGTTCTTCTTCTCTCTTTTTTGACATCATCTCAAGTT
455 ATCCTCAAACTTCTTTGTGAGAGTCAAAAGTTCTTCTTGTCTC-GTTTTGATATCATCTCGAGTT
*
7216420 CTGAAATTTGGGATTGCAGTCCTATATTTA
519 CTGAAATTTGGGATTGCAGTCCTATATTTT
7216450 CCTCTCC-CAGCTG
1 CCTC-CCTCAGCTG
7216463 TTTTGCTTCA
Statistics
Matches: 1000, Mismatches: 103, Indels: 16
0.89 0.09 0.01
Matches are distributed among these distances:
548 2 0.00
549 987 0.99
550 11 0.01
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (548 bp):
CCTCCCTCAGCTGACCATTCTCTTCGATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTTCTGG
TTCTTTAGAGAAATGACCTCAAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTCCTG
CAGAACTCTCTGTTGATCCTCGGTCTTGCTGACTATCTCTTCTTTTGCCTTTTCTATCTCAATCA
CATGATTGGAAATAGCTTGAGTTTTACTCTCAAGCTGAACTTCAAGTTCTGCTTTCTGGCTATGC
AGGGACTCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATCAAGCTCTTGACTTGAGTTGATGC
TTCATCGCCTTTAACTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTAGCGACTCCATGT
CTGCTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTCTCATTA
TCCTCAAACTTCTTTGTGAGAGTCAAAAGTTCTTCTTGTCTCGTTTTGATATCATCTCGAGTTCT
GAAATTTGGGATTGCAGTCCTATATTTT
Found at i:7222037 original size:117 final size:116
Alignment explanation
Indices: 7221897--7222179 Score: 376
Period size: 117 Copynumber: 2.5 Consensus size: 116
7221887 TTGCTTGCAT
* * *
7221897 TCATTGAATCCCTCA-ACTCCCTCAGCTCAGCTTCACAACTGGCAAGCTTCTCTTTAAGCTCACC
1 TCATTGAATCCCT-AGACTTCCTCAGCTCAGCTTCACAAGTAGCAAGCTTCTCTTTAAGCTCACC
* *
7221961 ATTTTCGTGTTCTAGCCTTGAAATGGATTCAGTCCATGAATTCTTGCCTGCC
65 ATTTTCGTGCTCTAGCCTTGAAATGGATTCAGTCCATGAATTCTTGCATGCC
* * * * **
7222013 TCCATTGAATCCCTAGATTTCCTCAGCTCAACTTCACAGGTAGCAAGCTTCTCTTTAAGGTGTCC
1 T-CATTGAATCCCTAGACTTCCTCAGCTCAGCTTCACAAGTAGCAAGCTTCTCTTTAAGCTCACC
* *
7222078 ATTTTCGTGCTCTAGCCTTGAAATGGATTCAGTCCATGCATTTTTGCATGCC
65 ATTTTCGTGCTCTAGCCTTGAAATGGATTCAGTCCATGAATTCTTGCATGCC
* * *
7222130 T-A--GTATCCCTAGAGTTCCTCACCTCAGCTTCACAAGTAGCAAGCTTCTCT
1 TCATTGAATCCCTAGACTTCCTCAGCTCAGCTTCACAAGTAGCAAGCTTCTCT
7222180 CCGAACTTTC
Statistics
Matches: 147, Mismatches: 18, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
113 43 0.29
115 1 0.01
116 2 0.01
117 101 0.69
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (116 bp):
TCATTGAATCCCTAGACTTCCTCAGCTCAGCTTCACAAGTAGCAAGCTTCTCTTTAAGCTCACCA
TTTTCGTGCTCTAGCCTTGAAATGGATTCAGTCCATGAATTCTTGCATGCC
Found at i:7222203 original size:113 final size:115
Alignment explanation
Indices: 7221916--7222232 Score: 316
Period size: 117 Copynumber: 2.8 Consensus size: 115
7221906 CCCTCAACTC
* * * * ** ** * *
7221916 CCTCAGCTCAGCTTCACAACTGGCAAGCTTCTCTTTAAGCTCACCATTTTCGTGTTCTAGCCTTG
1 CCTCACCTCAACTTCACAAGTAGCAAGCTTCTCTCGAAGCTGTCCATTATCGTGCTCTAGCCTTG
* *
7221981 AAATGGATTCAGTCCATGAATTCTTGCCTGCCTCCATTGAATCCCTAGATTT
66 AAATGGATTCAGTCCATGAATTCTTGCATGCCT-CA-TGAATCCCTAGAGTT
* * ** * *
7222033 CCTCAGCTCAACTTCACAGGTAGCAAGCTTCTCTTTAAGGTGTCCATTTTCGTGCTCTAGCCTTG
1 CCTCACCTCAACTTCACAAGTAGCAAGCTTCTCTCGAAGCTGTCCATTATCGTGCTCTAGCCTTG
* * *
7222098 AAATGGATTCAGTCCATGCATTTTTGCATGCCT-A-GTATCCCTAGAGTT
66 AAATGGATTCAGTCCATGAATTCTTGCATGCCTCATGAATCCCTAGAGTT
* * * * *
7222146 CCTCACCTCAGCTTCACAAGTAGCAAGCTTCTCTCCGAA-CTTTCTATTATCTTGCTCTAACCTT
1 CCTCACCTCAACTTCACAAGTAGCAAGCTTCTCT-CGAAGCTGTCCATTATCGTGCTCTAGCCTT
* * * *
7222210 GAATTCGATTCAGACAATGAATT
65 GAAATGGATTCAGTCCATGAATT
7222233 TCTGGCCATC
Statistics
Matches: 170, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
113 80 0.47
114 2 0.01
115 1 0.01
117 87 0.51
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (115 bp):
CCTCACCTCAACTTCACAAGTAGCAAGCTTCTCTCGAAGCTGTCCATTATCGTGCTCTAGCCTTG
AAATGGATTCAGTCCATGAATTCTTGCATGCCTCATGAATCCCTAGAGTT
Found at i:7222287 original size:25 final size:25
Alignment explanation
Indices: 7222259--7222308 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
7222249 CAATTCCTTA
7222259 ACTTCCTTATCTCAACTTCACCGGT
1 ACTTCCTTATCTCAACTTCACCGGT
*
7222284 ACTTCCTTATCTCAGCTTCACCGGT
1 ACTTCCTTATCTCAACTTCACCGGT
7222309 GGCAACCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.18, C:0.36, G:0.10, T:0.36
Consensus pattern (25 bp):
ACTTCCTTATCTCAACTTCACCGGT
Found at i:7226427 original size:24 final size:25
Alignment explanation
Indices: 7226378--7226431 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
7226368 ATGAAAGTTT
**
7226378 TTTTTAAAAAAATAATGTGTTATAA
1 TTTTTAAAAAAATAATCCGTTATAA
7226403 TTTTTAAAAAAATCAA-CCGTT-TAA
1 TTTTTAAAAAAAT-AATCCGTTATAA
7226427 TTTTT
1 TTTTT
7226432 TTTATATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 8 0.31
25 16 0.62
26 2 0.08
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (25 bp):
TTTTTAAAAAAATAATCCGTTATAA
Found at i:7234413 original size:43 final size:44
Alignment explanation
Indices: 7234336--7234424 Score: 144
Period size: 43 Copynumber: 2.0 Consensus size: 44
7234326 GAGGTACCTA
*
7234336 AAACAAATTATAAATAATATGATTAAATCAACCAATTACGTGTT
1 AAACAAATTATAAATAATATGATTAAATCAACCAATTACATGTT
* *
7234380 AAACAAATTATAAGTAAT-TGATTAAATCTACCAATTACATGTT
1 AAACAAATTATAAATAATATGATTAAATCAACCAATTACATGTT
7234423 AA
1 AA
7234425 TTTTGGAAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 25 0.60
44 17 0.40
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (44 bp):
AAACAAATTATAAATAATATGATTAAATCAACCAATTACATGTT
Found at i:7234648 original size:17 final size:17
Alignment explanation
Indices: 7234626--7234670 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
7234616 AATTTATTTT
7234626 TATAAAAATTATAAATA
1 TATAAAAATTATAAATA
*
7234643 TATAAATTATTA-AAATA
1 TATAAA-AATTATAAATA
7234660 -AT-AAAATTATA
1 TATAAAAATTATA
7234671 TTTTTACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
14 4 0.17
15 3 0.12
16 2 0.08
17 11 0.46
18 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TATAAAAATTATAAATA
Found at i:7239629 original size:20 final size:20
Alignment explanation
Indices: 7239604--7239641 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7239594 TTTATAGTTA
7239604 AAATTTTGTT-TTAATAATTT
1 AAATTTT-TTCTTAATAATTT
7239624 AAATTTTTTCTTAATAAT
1 AAATTTTTTCTTAATAAT
7239642 AGTTATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (20 bp):
AAATTTTTTCTTAATAATTT
Found at i:7241718 original size:18 final size:16
Alignment explanation
Indices: 7241680--7241712 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7241670 AATAATTCAA
7241680 AAAATTATTTAAAAAT
1 AAAATTATTTAAAAAT
7241696 AAAATT-TTATAAAAAT
1 AAAATTATT-TAAAAAT
7241712 A
1 A
7241713 GAAAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATTATTTAAAAAT
Found at i:7242493 original size:22 final size:22
Alignment explanation
Indices: 7242468--7242509 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
7242458 GGATTGAAAT
7242468 TAAAT-TATAAATTTTATTATAA
1 TAAATATAT-AATTTTATTATAA
7242490 TAAATATATAATTTTATTAT
1 TAAATATATAATTTTATTAT
7242510 TTTAATAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAAATATATAATTTTATTATAA
Found at i:7242538 original size:17 final size:16
Alignment explanation
Indices: 7242496--7242538 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
7242486 ATAATAAATA
7242496 TATAAT-TTTATTATT
1 TATAATATTTATTATT
7242511 T-TAATAGTTTATATATT
1 TATAATA-TTTAT-TATT
7242528 TATAATATTTA
1 TATAATATTTA
7242539 AAGAATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 4 0.17
15 1 0.04
16 5 0.21
17 9 0.38
18 5 0.21
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TATAATATTTATTATT
Found at i:7250206 original size:26 final size:27
Alignment explanation
Indices: 7250170--7250233 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
7250160 AAAATATTTG
7250170 TTTTTAATTTTAGTCCATA-TTATCATGA
1 TTTTT-ATTTTA-TCCATATTTATCATGA
** *
7250198 -TTTTATTTTATTTATATTTATCGTGA
1 TTTTTATTTTATCCATATTTATCATGA
7250224 TTTTTATTTT
1 TTTTTATTTT
7250234 GCCAGTTGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 4 0.13
26 14 0.45
27 13 0.42
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.64
Consensus pattern (27 bp):
TTTTTATTTTATCCATATTTATCATGA
Found at i:7252030 original size:25 final size:25
Alignment explanation
Indices: 7251979--7252027 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
7251969 ATGTTTATTT
*
7251979 TTATATCATAAAAAATTAAAATTAA
1 TTATATCATAAAAAATTAAAATAAA
7252004 TTATAT-ATATAAAAA-TAAAATAAA
1 TTATATCATA-AAAAATTAAAATAAA
7252028 ATTTAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
TTATATCATAAAAAATTAAAATAAA
Found at i:7254314 original size:29 final size:29
Alignment explanation
Indices: 7254255--7254315 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
7254245 CTAAACTTAT
** *
7254255 ATTTTGATCTATGTAAAAAACATTATTAA
1 ATTTTGATCTATGTAAAAAACAAAATAAA
*
7254284 ATTTTGATCTTTGCTAAAAAA-AAAATAAA
1 ATTTTGATCTATG-TAAAAAACAAAATAAA
7254313 ATT
1 ATT
7254316 CTAGATTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (29 bp):
ATTTTGATCTATGTAAAAAACAAAATAAA
Found at i:7254674 original size:30 final size:30
Alignment explanation
Indices: 7254634--7254706 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
7254624 AATTATATAT
*
7254634 AAACTTTAATTTGGTGCAATTATATACATG
1 AAACTTTAATTTGGTGCAAATATATACATG
* ** * *
7254664 AAACTCTAATTGTGGTTTAAATGTATACTTG
1 AAACTTTAATT-TGGTGCAAATATATACATG
7254695 AAACTTTAATTT
1 AAACTTTAATTT
7254707 TGATTTAATC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
30 11 0.31
31 24 0.69
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (30 bp):
AAACTTTAATTTGGTGCAAATATATACATG
Found at i:7254697 original size:31 final size:31
Alignment explanation
Indices: 7254656--7254714 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
7254646 GGTGCAATTA
*
7254656 TATACATGAAACTCTAATTGTGGTTTAAATG
1 TATACATGAAACTCTAATTGTGATTTAAATG
* * *
7254687 TATACTTGAAACTTTAATTTTGATTTAA
1 TATACATGAAACTCTAATTGTGATTTAA
7254715 TCATACATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (31 bp):
TATACATGAAACTCTAATTGTGATTTAAATG
Found at i:7254890 original size:29 final size:30
Alignment explanation
Indices: 7254847--7254925 Score: 106
Period size: 29 Copynumber: 2.6 Consensus size: 30
7254837 GAATTGGATC
*
7254847 AAATCAAAATTTCATGTATACAATTGCACA-
1 AAATC-AAAGTTCATGTATACAATTGCACAT
7254877 AAATCAAAGTTCATGTATACAATTGCACATT
1 AAATCAAAGTTCATGTATACAATTGCACA-T
* *
7254908 GAATCATAGTTCATGTAT
1 AAATCAAAGTTCATGTAT
7254926 TAAATTTGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 23 0.52
30 5 0.11
31 16 0.36
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATACAATTGCACAT
Found at i:7254978 original size:22 final size:20
Alignment explanation
Indices: 7254945--7254997 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
7254935 TATTTATCCC
7254945 ATTATTAAATA-TTAAAATAAT
1 ATTA-TAAATATTTAAAA-AAT
7254966 ATAATATAAATATTTAAAAAAT
1 AT--TATAAATATTTAAAAAAT
7254988 ATTATAAATA
1 ATTATAAATA
7254998 ACATGGACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 8 0.28
21 2 0.07
22 11 0.38
23 8 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTATAAATATTTAAAAAAT
Found at i:7257055 original size:29 final size:29
Alignment explanation
Indices: 7257012--7257070 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
7257002 TTATCATGTG
* *
7257012 ATGGGGACAACTATGCAATCTTAAATAAT
1 ATGGAGACAACTATGCAATCTTAAACAAT
* *
7257041 ATGGAGACAATTATGTAATCTTAAACAAT
1 ATGGAGACAACTATGCAATCTTAAACAAT
7257070 A
1 A
7257071 ATATTACTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (29 bp):
ATGGAGACAACTATGCAATCTTAAACAAT
Found at i:7257752 original size:13 final size:13
Alignment explanation
Indices: 7257734--7257760 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7257724 TAATTTTCTT
7257734 AAAAAAATCTATA
1 AAAAAAATCTATA
7257747 AAAAAAATCTATA
1 AAAAAAATCTATA
7257760 A
1 A
7257761 GTTATTTTAA
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:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAAAAATCTATA
Found at i:7259016 original size:17 final size:17
Alignment explanation
Indices: 7258978--7259033 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
7258968 AGGACAAAAC
*
7258978 CTTTTCTTTT-CTTTTCT
1 CTTTT-TTTTCCTTCTCT
*
7258995 TTTTTTTTTCCTTCTCT
1 CTTTTTTTTCCTTCTCT
* *
7259012 CTTTTTTTACC-TCTGT
1 CTTTTTTTTCCTTCTCT
7259028 CTTTTT
1 CTTTTT
7259034 AAATCCAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
16 14 0.42
17 19 0.58
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (17 bp):
CTTTTTTTTCCTTCTCT
Found at i:7259030 original size:16 final size:17
Alignment explanation
Indices: 7258996--7259033 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
7258986 TTCTTTTCTT
*
7258996 TTTTTTTTCCTTCTCTC
1 TTTTTTTACCTTCTCTC
*
7259013 TTTTTTTACC-TCTGTC
1 TTTTTTTACCTTCTCTC
7259029 TTTTT
1 TTTTT
7259034 AAATCCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTTTTACCTTCTCTC
Found at i:7259995 original size:25 final size:25
Alignment explanation
Indices: 7259958--7260006 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
7259948 TCATTAATAT
7259958 CTTAACTTTACTGTTTCA-AGTAAAG
1 CTTAACTTTACTGTTT-ATAGTAAAG
7259983 CTTAA-TTTGACTGTTTATAGTAAA
1 CTTAACTTT-ACTGTTTATAGTAAA
7260007 AGACACTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (25 bp):
CTTAACTTTACTGTTTATAGTAAAG
Found at i:7261589 original size:2 final size:2
Alignment explanation
Indices: 7261582--7261608 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7261572 TTATGCCTTA
7261582 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
7261609 TTCGCCGGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:7263792 original size:75 final size:75
Alignment explanation
Indices: 7263694--7263833 Score: 167
Period size: 75 Copynumber: 1.9 Consensus size: 75
7263684 CCAATTTATA
* *
7263694 GGATGCACAAAGGGGGCACAAGGGAGCAC-CATGTTCTGCAA-GGCACATGGTGGTGGAAAAAGG
1 GGATGCACAAAGGGGGCACAAGGGAGCACTCAT-TTCTGCAAGGGC-CATGGAGGGGGAAAAAGG
7263757 TGCACATATCTG
64 TGCACATATCTG
* * ** * * *
7263769 GGATGTACAAAGGGTGCTGAAGGGAGTACTCCTTTCTGTAAGGGCCATGGAGGGGGAAAAAGGTG
1 GGATGCACAAAGGGGGCACAAGGGAGCACTCATTTCTGCAAGGGCCATGGAGGGGGAAAAAGGTG
7263834 TGCATTTCAA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
75 49 0.91
76 5 0.09
ACGTcount: A:0.29, C:0.16, G:0.37, T:0.18
Consensus pattern (75 bp):
GGATGCACAAAGGGGGCACAAGGGAGCACTCATTTCTGCAAGGGCCATGGAGGGGGAAAAAGGTG
CACATATCTG
Found at i:7265505 original size:17 final size:16
Alignment explanation
Indices: 7265471--7265508 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
7265461 TTACAATTAT
7265471 AATTA-ATACTAAAAA
1 AATTATATACTAAAAA
*
7265486 AATTATATACGTATAAA
1 AATTATATAC-TAAAAA
7265503 AATTAT
1 AATTAT
7265509 GTATTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 4 0.20
17 11 0.55
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (16 bp):
AATTATATACTAAAAA
Found at i:7267977 original size:93 final size:92
Alignment explanation
Indices: 7267818--7268003 Score: 345
Period size: 93 Copynumber: 2.0 Consensus size: 92
7267808 AATGCTCTCC
*
7267818 TGCAAATCTAGGTTTGTCCTCTCAAATTTCATGAATGAAAGGCTTCAATTCTCATTTCACGGTTG
1 TGCAAATCTAGGTTTGCCCTCTCAAATTTCATGAATGAAAGGCTTCAATTCTCATTTCACGGTTG
7267883 CTTTAATATTATTTTTATCTCCCTTGTT
66 CTTTAATATTA-TTTTATCTCCCTTGTT
*
7267911 TGCAAATCTAGGTTTGCCCTCTCAAGTTTCATGAATGAAAGGCTTCAATTCTCATTTCACGGTTG
1 TGCAAATCTAGGTTTGCCCTCTCAAATTTCATGAATGAAAGGCTTCAATTCTCATTTCACGGTTG
7267976 CTTTAATATTATTTTATCTCCCTTGTT
66 CTTTAATATTATTTTATCTCCCTTGTT
7268003 T
1 T
7268004 TTAGCTCCTA
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
92 17 0.19
93 74 0.81
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.44
Consensus pattern (92 bp):
TGCAAATCTAGGTTTGCCCTCTCAAATTTCATGAATGAAAGGCTTCAATTCTCATTTCACGGTTG
CTTTAATATTATTTTATCTCCCTTGTT
Found at i:7274071 original size:20 final size:20
Alignment explanation
Indices: 7274048--7274097 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
7274038 AAATCCAAAT
7274048 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
*
7274068 TAAAATCCTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
7274088 TAAGAATACT
1 TAA-AATACT
7274098 GATGTGACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:7275645 original size:3 final size:3
Alignment explanation
Indices: 7275639--7275664 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7275629 CTTCTTGCCA
7275639 CCG CCG CCG CCG CCG CCG CCG CCG CC
1 CCG CCG CCG CCG CCG CCG CCG CCG CC
7275665 ACCACCACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.69, G:0.31, T:0.00
Consensus pattern (3 bp):
CCG
Found at i:7278155 original size:73 final size:73
Alignment explanation
Indices: 7278073--7278217 Score: 281
Period size: 73 Copynumber: 2.0 Consensus size: 73
7278063 AAATTCATAT
*
7278073 GTCAAATAATAATAAAAATTTGACTGAAATAAGAGTCATACTTAACATCAAGTGATCTCTTAATT
1 GTCAAATAATAATAAAAATTTGACTGAAATAAGAGTCATACGTAACATCAAGTGATCTCTTAATT
7278138 ATATTTAG
66 ATATTTAG
7278146 GTCAAATAATAATAAAAATTTGACTGAAATAAGAGTCATACGTAACATCAAGTGATCTCTTAATT
1 GTCAAATAATAATAAAAATTTGACTGAAATAAGAGTCATACGTAACATCAAGTGATCTCTTAATT
7278211 ATATTTA
66 ATATTTA
7278218 TAGCACTTGA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (73 bp):
GTCAAATAATAATAAAAATTTGACTGAAATAAGAGTCATACGTAACATCAAGTGATCTCTTAATT
ATATTTAG
Found at i:7282999 original size:26 final size:26
Alignment explanation
Indices: 7282970--7283021 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
7282960 TAACAATGAG
* * *
7282970 TAAATTAAGAAGAAAATAAAATAAAA
1 TAAAATAAGAAGAAAAAAAAAGAAAA
*
7282996 TAAAATCAGAAGAAAAAAAAAGAAAA
1 TAAAATAAGAAGAAAAAAAAAGAAAA
7283022 GTATGAAATC
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:0.75, C:0.02, G:0.10, T:0.13
Consensus pattern (26 bp):
TAAAATAAGAAGAAAAAAAAAGAAAA
Found at i:7288407 original size:13 final size:13
Alignment explanation
Indices: 7288389--7288414 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7288379 CTTGGTTGTC
7288389 TTTTAGGAAAATA
1 TTTTAGGAAAATA
7288402 TTTTAGGAAAATA
1 TTTTAGGAAAATA
7288415 ACAGCATTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (13 bp):
TTTTAGGAAAATA
Found at i:7294886 original size:6 final size:5
Alignment explanation
Indices: 7294869--7294924 Score: 76
Period size: 5 Copynumber: 10.4 Consensus size: 5
7294859 AAAACTCGTA
7294869 AAAAT AAAAT AAATAT AAACAT AAAAT AAAAT AAAAT AAAAT AAATAT
1 AAAAT AAAAT AAA-AT AAA-AT AAAAT AAAAT AAAAT AAAAT AAA-AT
7294917 AAACAT AA
1 AAA-AT AA
7294925 TACAAACTCG
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
5 28 0.60
6 19 0.40
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:7294926 original size:11 final size:11
Alignment explanation
Indices: 7294880--7294931 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
7294870 AAATAAAATA
7294880 AATATAAACAT
1 AATATAAACAT
*
7294891 AAAATAAA-AT
1 AATATAAACAT
*
7294901 AAAATAAA-AT
1 AATATAAACAT
7294911 AAATATAAACAT
1 -AATATAAACAT
*
7294923 AATACAAAC
1 AATATAAAC
7294932 TCGGCAGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
10 12 0.33
11 22 0.61
12 2 0.06
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (11 bp):
AATATAAACAT
Found at i:7297336 original size:31 final size:29
Alignment explanation
Indices: 7297266--7297342 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
7297256 TTTCCCTTAA
*
7297266 GTTACATTTTAGTCACTTATATTTAAAAT
1 GTTACATTTTAGTCACTTATAGTTAAAAT
**
7297295 GTTACATTTTAGTCACTTAT-GTTAACGT
1 GTTACATTTTAGTCACTTATAGTTAAAAT
7297323 GTTGTAACATTTTAGTCACT
1 G-T-T-ACATTTTAGTCACT
7297343 AAGTTGTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 6 0.14
29 21 0.50
30 1 0.02
31 14 0.33
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.47
Consensus pattern (29 bp):
GTTACATTTTAGTCACTTATAGTTAAAAT
Found at i:7302518 original size:19 final size:19
Alignment explanation
Indices: 7302494--7302536 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
7302484 TGGTGGCGAC
7302494 TCCCATTCTTCATTTTCAT
1 TCCCATTCTTCATTTTCAT
7302513 TCCCATTCTTCATTTTCAT
1 TCCCATTCTTCATTTTCAT
7302532 TCCCA
1 TCCCA
7302537 AAATCTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.16, C:0.35, G:0.00, T:0.49
Consensus pattern (19 bp):
TCCCATTCTTCATTTTCAT
Found at i:7305671 original size:16 final size:16
Alignment explanation
Indices: 7305650--7305684 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
7305640 GGGAGTGCAC
7305650 ACACTTTTAAGATTAA
1 ACACTTTTAAGATTAA
7305666 ACACTTTTAAGATTAA
1 ACACTTTTAAGATTAA
7305682 ACA
1 ACA
7305685 ATCAACTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (16 bp):
ACACTTTTAAGATTAA
Found at i:7306453 original size:129 final size:129
Alignment explanation
Indices: 7306222--7306481 Score: 412
Period size: 129 Copynumber: 2.0 Consensus size: 129
7306212 TACGTCCTCC
* * * * *
7306222 TTCTACATTAGCAACAATTTTCATGTCAATCGAGCTAAGACTCAATCGACAACTTTGTAAAAATC
1 TTCTACATTAGCAACAATTTTCATGTAAATCGAACTAAAACTCAATAGACAACCTTGTAAAAATC
* * *
7306287 TTCATTTCTCAATTTAAACACTCATCAAATTTAAAATTTCCTTTAAAACTATAATTTAAGTTAT
66 TTAAATTCTCAATCTAAACACTCATCAAATTTAAAATTTCCTTTAAAACTATAATTTAAGTTAT
* *
7306351 TTCTACATTAGTAACAATTTTCATGTAAATCGAACTAAAACTCAATAGACAACCTTGTGAAAATC
1 TTCTACATTAGCAACAATTTTCATGTAAATCGAACTAAAACTCAATAGACAACCTTGTAAAAATC
* *
7306416 TTAAATTCTCAATCTAAACACTCATCAAATTTGAAATTTCCTTTAAAACTGTAATTTAAGTTAT
66 TTAAATTCTCAATCTAAACACTCATCAAATTTAAAATTTCCTTTAAAACTATAATTTAAGTTAT
7306480 TT
1 TT
7306482 AATTTAAAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 119 1.00
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.37
Consensus pattern (129 bp):
TTCTACATTAGCAACAATTTTCATGTAAATCGAACTAAAACTCAATAGACAACCTTGTAAAAATC
TTAAATTCTCAATCTAAACACTCATCAAATTTAAAATTTCCTTTAAAACTATAATTTAAGTTAT
Found at i:7307116 original size:28 final size:28
Alignment explanation
Indices: 7307070--7307130 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
7307060 TTCAATTAAT
*
7307070 AAAATAATTAAATAAATAA-ATAAAACAA
1 AAAATAATTAAACAAATAAGATAAAA-AA
* * *
7307098 AAAATAATTGAACATATAAGATACAAAA
1 AAAATAATTAAACAAATAAGATAAAAAA
7307126 AAAAT
1 AAAAT
7307131 CATATTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 23 0.82
29 5 0.18
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.21
Consensus pattern (28 bp):
AAAATAATTAAACAAATAAGATAAAAAA
Found at i:7307377 original size:32 final size:33
Alignment explanation
Indices: 7307341--7307402 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
7307331 AGAAAAAGTC
*
7307341 TCAAGTTTAAATGCCAAATTAAA-AAAAAACTA
1 TCAAGTTTAAATACCAAATTAAACAAAAAACTA
* *
7307373 TCAAGTTTAGATACTAAATTAAACAAAAAA
1 TCAAGTTTAAATACCAAATTAAACAAAAAA
7307403 AATTAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 20 0.77
33 6 0.23
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.26
Consensus pattern (33 bp):
TCAAGTTTAAATACCAAATTAAACAAAAAACTA
Found at i:7307963 original size:25 final size:25
Alignment explanation
Indices: 7307935--7307983 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
7307925 TATTTGTGTT
* *
7307935 ATAATAATTTGATTATACTTATTCC
1 ATAATAATTCGATTATACTAATTCC
* *
7307960 ATAATAGTTCGATTCTACTAATTC
1 ATAATAATTCGATTATACTAATTC
7307984 GATATTTTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (25 bp):
ATAATAATTCGATTATACTAATTCC
Found at i:7315809 original size:18 final size:19
Alignment explanation
Indices: 7315786--7315824 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
7315776 ATATATAGAT
7315786 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
7315804 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
7315823 AT
1 AT
7315825 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:7322253 original size:10 final size:10
Alignment explanation
Indices: 7322224--7322276 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
7322214 TGACAAAAGC
7322224 TTATAAAAAA
1 TTATAAAAAA
* *
7322234 TTCTAGAAAA
1 TTATAAAAAA
*
7322244 TTATACAAAA
1 TTATAAAAAA
7322254 TATATAAAAAA
1 T-TATAAAAAA
*
7322265 ATATAAATAAA
1 TTATAAA-AAA
7322276 T
1 T
7322277 CATTAATTAG
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
10 23 0.68
11 11 0.32
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:7334578 original size:18 final size:17
Alignment explanation
Indices: 7334527--7334578 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
7334517 TTTCTTTTTC
7334527 TTCCTATTTTTCTAATAG
1 TTCCTATTTTT-TAATAG
* * *
7334545 TTCGTGTCTTTCTAATAG
1 TTCCTAT-TTTTTAATAG
7334563 TTCCTATTTTATTAAT
1 TTCCTATTTT-TTAAT
7334579 TTATTTATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.56
Consensus pattern (17 bp):
TTCCTATTTTTTAATAG
Found at i:7335244 original size:57 final size:57
Alignment explanation
Indices: 7335161--7335272 Score: 161
Period size: 57 Copynumber: 2.0 Consensus size: 57
7335151 ATTATTGTGG
* * *
7335161 GCATGGGGTCCACTCCTTTGAGCTTCAGGTCCTTAAATTGGGCCGAAATCTTCTTTA
1 GCATGGGCTCCACTCATTTGAGCTTCAAGTCCTTAAATTGGGCCGAAATCTTCTTTA
* * * *
7335218 GCATGGGCTCTACTCATTTGGGCTTCAAGTTCTTAAATTGGGCTGAAATCTTCTT
1 GCATGGGCTCCACTCATTTGAGCTTCAAGTCCTTAAATTGGGCCGAAATCTTCTT
7335273 CATTGAAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (57 bp):
GCATGGGCTCCACTCATTTGAGCTTCAAGTCCTTAAATTGGGCCGAAATCTTCTTTA
Found at i:7345120 original size:26 final size:27
Alignment explanation
Indices: 7345075--7345126 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
7345065 ATGATTTAAT
* *
7345075 AAATAATATAAATTTTAAAAACTAAAA
1 AAATAATAAAAATATTAAAAACTAAAA
*
7345102 AAAT-ATAAAAATATTAAAAATTAAA
1 AAATAATAAAAATATTAAAAACTAAA
7345127 TATTGAATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (27 bp):
AAATAATAAAAATATTAAAAACTAAAA
Found at i:7345431 original size:27 final size:25
Alignment explanation
Indices: 7345391--7345472 Score: 67
Period size: 27 Copynumber: 3.1 Consensus size: 25
7345381 AATTTCGTAT
**
7345391 TTAAATTTTCTTTTTTCAATTAAATA
1 TTAAATTTAATTTTTT-AATTAAATA
*
7345417 CTTAAATTTAATTTTTTTAATTGATATA
1 -TTAAATTTAA-TTTTTTAATT-AAATA
* *
7345445 TT-AATTAAATTTTTTATTTAAATTA
1 TTAAATTTAATTTTTTAATTAAA-TA
7345470 TTA
1 TTA
7345473 CTTATAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
24 2 0.04
25 13 0.29
26 6 0.13
27 14 0.31
28 10 0.22
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.59
Consensus pattern (25 bp):
TTAAATTTAATTTTTTAATTAAATA
Found at i:7352290 original size:20 final size:21
Alignment explanation
Indices: 7352243--7352292 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
7352233 ATACCACATC
7352243 AGTATTTTTATCCTAAATTTCA
1 AGTA-TTTTATCCTAAATTTCA
* *
7352265 AG-ATTTTATCCTGAATTT-T
1 AGTATTTTATCCTAAATTTCA
7352284 AGTATTTTA
1 AGTATTTTA
7352293 ATTTGGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 1 0.04
22 2 0.08
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (21 bp):
AGTATTTTATCCTAAATTTCA
Found at i:7352742 original size:19 final size:18
Alignment explanation
Indices: 7352698--7352747 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
7352688 TTTAATTCTA
*
7352698 ATATTTTTAAAATTTTAT
1 ATATTTTAAAAATTTTAT
*
7352716 -TATATTAAAAATATTTAT
1 ATATTTTAAAAAT-TTTAT
7352734 ATATTTTAACAAAT
1 ATATTTTAA-AAAT
7352748 CTAATCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 10 0.38
18 5 0.19
19 7 0.27
20 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATTTTAAAAATTTTAT
Found at i:7353915 original size:19 final size:18
Alignment explanation
Indices: 7353891--7353947 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 18
7353881 AATGTTGTTG
7353891 TTAATAATTTCTTATAAAT
1 TTAATAATTT-TTATAAAT
* *
7353910 TTAATAGTTTTTAAATAAT
1 TTAATAATTTTTATA-AAT
7353929 TTATATAATGTTTTTATAA
1 TTA-ATAA--TTTTTATAA
7353948 TTATTTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
18 4 0.13
19 15 0.50
20 3 0.10
21 1 0.03
22 7 0.23
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (18 bp):
TTAATAATTTTTATAAAT
Found at i:7353937 original size:23 final size:23
Alignment explanation
Indices: 7353911--7353954 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
7353901 CTTATAAATT
7353911 TAATAGTTTTTA-AATAATTTATA
1 TAAT-GTTTTTATAATAATTTATA
*
7353934 TAATGTTTTTATAATTATTTA
1 TAATGTTTTTATAATAATTTA
7353955 AAAATAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (23 bp):
TAATGTTTTTATAATAATTTATA
Found at i:7354017 original size:15 final size:17
Alignment explanation
Indices: 7353988--7354032 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
7353978 ATTGTTTTTA
7353988 TTTAAATA--ATT-ATT
1 TTTAAATATTATTAATT
7354002 TTTAAA-ATT-TTAATT
1 TTTAAATATTATTAATT
7354017 TTTAAATATTATTAAT
1 TTTAAATATTATTAAT
7354033 GTGATAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.04
14 8 0.31
15 9 0.35
16 3 0.12
17 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTAAATATTATTAATT
Found at i:7355108 original size:65 final size:65
Alignment explanation
Indices: 7355033--7355154 Score: 244
Period size: 65 Copynumber: 1.9 Consensus size: 65
7355023 AACGAAGAAA
7355033 TTTCAGTTTAGGTCTTTTACTAATTGCAGTTAGTTTTGAAATTAGAATTGCTAGTTGGTTAAGAC
1 TTTCAGTTTAGGTCTTTTACTAATTGCAGTTAGTTTTGAAATTAGAATTGCTAGTTGGTTAAGAC
7355098 TTTCAGTTTAGGTCTTTTACTAATTGCAGTTAGTTTTGAAATTAGAATTGCTAGTTG
1 TTTCAGTTTAGGTCTTTTACTAATTGCAGTTAGTTTTGAAATTAGAATTGCTAGTTG
7355155 AAATTAGACT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.46
Consensus pattern (65 bp):
TTTCAGTTTAGGTCTTTTACTAATTGCAGTTAGTTTTGAAATTAGAATTGCTAGTTGGTTAAGAC
Found at i:7370112 original size:46 final size:44
Alignment explanation
Indices: 7370008--7370115 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
7369998 TGTCTTTGAC
** * * *
7370008 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
7370052 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
7370098 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
7370116 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:7372875 original size:17 final size:19
Alignment explanation
Indices: 7372855--7372891 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
7372845 TTTATAATTT
7372855 TGTATA-TTAT-TTTTAAA
1 TGTATATTTATATTTTAAA
7372872 TGTATATTTATATTTTAAA
1 TGTATATTTATATTTTAAA
7372891 T
1 T
7372892 ATGTGATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 4 0.22
19 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TGTATATTTATATTTTAAA
Found at i:7373916 original size:64 final size:64
Alignment explanation
Indices: 7373843--7374053 Score: 142
Period size: 64 Copynumber: 3.2 Consensus size: 64
7373833 CTGGGCCAGA
*
7373843 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** * *
7373907 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAGCAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
7373969 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
7373980 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
7374044 GCCCATTTCA
1 GCCCATTTCA
7374054 AAATACATGC
Statistics
Matches: 101, Mismatches: 29, Indels: 34
0.62 0.18 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.25
65 5 0.05
66 1 0.01
67 10 0.10
68 5 0.05
69 5 0.05
70 10 0.10
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:7374055 original size:137 final size:136
Alignment explanation
Indices: 7373809--7374094 Score: 527
Period size: 137 Copynumber: 2.1 Consensus size: 136
7373799 TATTGGGCCT
**
7373809 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
7373874 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
7373939 CATATGC
130 CATATGC
*
7373946 AAGCCCATTTGGGTAGCAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
7374011 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
7374076 ATATGC
131 ATATGC
7374082 AAGCCCATTTGGG
1 AAGCCCATTTGGG
7374095 GAGACTACTC
Statistics
Matches: 145, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
136 22 0.15
137 123 0.85
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:7375427 original size:26 final size:26
Alignment explanation
Indices: 7375389--7375472 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
7375379 CATGAAATTC
*
7375389 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
7375415 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
7375441 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
7375467 TTATCA
1 TTATCA
7375473 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:7393915 original size:14 final size:16
Alignment explanation
Indices: 7393890--7393922 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
7393880 AATATATTCA
7393890 TTATATATAATA-AAT
1 TTATATATAATACAAT
7393905 TTATA-ATAATACAAT
1 TTATATATAATACAAT
7393920 TTA
1 TTA
7393923 AATTAACCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATATATAATACAAT
Found at i:7402893 original size:46 final size:46
Alignment explanation
Indices: 7402841--7403207 Score: 617
Period size: 46 Copynumber: 8.0 Consensus size: 46
7402831 GTGTGCTCTC
7402841 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
*
7402887 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
*
7402933 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
*
7402979 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
*
7403025 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
* **
7403071 TGGTATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
* **
7403117 TGGTATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
* **
7403163 TGGTATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
7403208 ATGACAGAAA
Statistics
Matches: 316, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 316 1.00
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:7406797 original size:25 final size:25
Alignment explanation
Indices: 7406718--7406807 Score: 81
Period size: 25 Copynumber: 3.6 Consensus size: 25
7406708 GCCATATAAC
* * * *
7406718 GGGAATCTCATGTGAGCTAAGTAAT
1 GGGAAGCTCATGAGAGCCAAGTATT
* * * * *
7406743 GGGAAGTTCTTGCGAGCCAAATATC
1 GGGAAGCTCATGAGAGCCAAGTATT
*
7406768 AGGAAGCTCATGAGAGCCAAGTATT
1 GGGAAGCTCATGAGAGCCAAGTATT
*
7406793 GGGAAGCTCAAGAGA
1 GGGAAGCTCATGAGA
7406808 TTTGTGGTGT
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (25 bp):
GGGAAGCTCATGAGAGCCAAGTATT
Found at i:7408455 original size:18 final size:19
Alignment explanation
Indices: 7408410--7408462 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
7408400 TACTTTTATT
7408410 ATTTAA-AAACTAAAAATGC
1 ATTTAATAAA-TAAAAATGC
7408429 ATTTAATAAATAAAAATG-
1 ATTTAATAAATAAAAATGC
* *
7408447 TTTTTATAAATAAAAA
1 ATTTAATAAATAAAAA
7408463 AGACAAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 14 0.45
19 14 0.45
20 3 0.10
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (19 bp):
ATTTAATAAATAAAAATGC
Found at i:7408707 original size:20 final size:22
Alignment explanation
Indices: 7408682--7408722 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
7408672 TTATTTTTAA
7408682 TAATTTAA-TAT-TTATATTTT
1 TAATTTAATTATATTATATTTT
7408702 TAATTTAATTATATTATATTT
1 TAATTTAATTATATTATATTT
7408723 ATTATACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TAATTTAATTATATTATATTTT
Found at i:7408715 original size:23 final size:22
Alignment explanation
Indices: 7408673--7408722 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
7408663 TTGGATAATT
7408673 TATTTTTAATAATTTAATATTTA
1 TATTTTTAATAATTTAATA-TTA
7408696 TATTTTTAATTTAA-TT-ATATTA
1 TATTTTTAA--TAATTTAATATTA
7408718 TATTT
1 TATTT
7408723 ATTATACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 8 0.32
23 12 0.48
24 2 0.08
25 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTTTTAATAATTTAATATTA
Found at i:7409648 original size:30 final size:28
Alignment explanation
Indices: 7409614--7409672 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 28
7409604 GGCTTTGTAA
7409614 TACAAGTTTTTTTAACATATTAATAATTCT
1 TACAAG-TTTTTT-ACATATTAATAATTCT
*
7409644 TACAAGTTTTTTATATATTAATAATTCT
1 TACAAGTTTTTTACATATTAATAATTCT
7409672 T
1 T
7409673 TTTTAAACGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 16 0.57
29 6 0.21
30 6 0.21
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (28 bp):
TACAAGTTTTTTACATATTAATAATTCT
Found at i:7410805 original size:12 final size:12
Alignment explanation
Indices: 7410788--7410820 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
7410778 CAGCTCGCCC
7410788 ATATTAATTTTT
1 ATATTAATTTTT
*
7410800 ATATTATTTTTT
1 ATATTAATTTTT
7410812 ATA-TAATTT
1 ATATTAATTT
7410821 AAAATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:7410980 original size:30 final size:30
Alignment explanation
Indices: 7410944--7411005 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
7410934 CTTCAGAATA
7410944 AAATGTCTCTAAAATAATAACAAAATTAAC
1 AAATGTCTCTAAAATAATAACAAAATTAAC
*
7410974 AAATGTCTTTAAAATAATAACAAAATTAAC
1 AAATGTCTCTAAAATAATAACAAAATTAAC
7411004 AA
1 AA
7411006 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATGTCTCTAAAATAATAACAAAATTAAC
Found at i:7411060 original size:22 final size:22
Alignment explanation
Indices: 7411035--7411076 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7411025 TATCTAAATA
7411035 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
7411057 ATAATAGTAAAATGGTAGCA
1 ATAACAATAAAATAGTAGCA
7411077 GAATAGGGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:7414729 original size:21 final size:21
Alignment explanation
Indices: 7414703--7414743 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7414693 ATCTGCTCAA
* *
7414703 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
7414724 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
7414744 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:7429267 original size:3 final size:3
Alignment explanation
Indices: 7429259--7429291 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
7429249 TATACTACAA
*
7429259 TCT TCT TCT T-T TTT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
7429292 TTCCGTGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TCT
Found at i:7440005 original size:9 final size:9
Alignment explanation
Indices: 7439991--7440031 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
7439981 TTCTTATATT
7439991 TTTTTTTAC
1 TTTTTTTAC
7440000 TTTTTTTAC
1 TTTTTTTAC
**
7440009 TTTTTGAAC
1 TTTTTTTAC
7440018 -TTTTTTA-
1 TTTTTTTAC
7440025 TTTTTTT
1 TTTTTTT
7440032 TCTTATATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
8 11 0.41
9 16 0.59
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.78
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:7440117 original size:36 final size:36
Alignment explanation
Indices: 7440048--7440121 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
7440038 ATTTTGTCTC
*
7440048 TTTCTTAGATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAG-TTTATATTAT
7440085 TTTCTTA-ATTTATTTTACTTATTTAA-TTTATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTATATTAT
7440121 T
1 T
7440122 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 15 0.44
37 11 0.32
38 8 0.24
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (36 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTATATTAT
Found at i:7440126 original size:18 final size:17
Alignment explanation
Indices: 7440075--7440122 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
7440065 TTTTTTAAGT
*
7440075 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
*
7440093 TTTATTTTACTTATTTAA
1 TTTATATTA-TTATTTAA
7440111 TTTATATTATTA
1 TTTATATTATTA
7440123 ATTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:7440199 original size:23 final size:24
Alignment explanation
Indices: 7440111--7440204 Score: 67
Period size: 21 Copynumber: 4.1 Consensus size: 24
7440101 ACTTATTTAA
* *
7440111 TTTATATTATTAATTTTAAAAAAAT
1 TTTATATTATT-ATTTTTAAAATAT
* * *
7440136 TGTA-A-TA-TATATTTAAAATGT
1 TTTATATTATTATTTTTAAAATAT
*
7440157 TTTATAATATT-TTTTT-AAAT-T
1 TTTATATTATTATTTTTAAAATAT
7440178 TTTA-ATTATTATTTTTAAAAATAT
1 TTTATATTATTATTTTT-AAAATAT
7440202 TTT
1 TTT
7440205 TTAACTTTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 15
0.70 0.10 0.19
Matches are distributed among these distances:
20 5 0.09
21 22 0.41
22 6 0.11
23 12 0.22
24 6 0.11
25 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTATATTATTATTTTTAAAATAT
Found at i:7440261 original size:37 final size:36
Alignment explanation
Indices: 7440220--7440290 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
7440210 TTTATATATA
* *
7440220 TATTTGTGAAATT-ATTTATTTATAAATTTTAAAAATG
1 TATTTGTCAAATTAATTT-TTTA-AAATTTAAAAAATG
*
7440257 TATTTTTCAAATTAATTTTTTAAAATTTAAAAAA
1 TATTTGTCAAATTAATTTTTTAAAATTTAAAAAA
7440291 AAATAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 11 0.37
37 15 0.50
38 4 0.13
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (36 bp):
TATTTGTCAAATTAATTTTTTAAAATTTAAAAAATG
Found at i:7440973 original size:10 final size:9
Alignment explanation
Indices: 7440961--7441049 Score: 63
Period size: 10 Copynumber: 9.4 Consensus size: 9
7440951 TAAATTTTAA
7440961 AAAATATTT
1 AAAATATTT
7440970 AAAATCATTT
1 AAAAT-ATTT
*
7440980 AAAATATTAA
1 AAAATATT-T
7440990 AAAATATTT
1 AAAATATTT
*
7440999 TAAATCATTT
1 AAAAT-ATTT
* *
7441009 TAAATGTTTT
1 AAAAT-ATTT
* *
7441019 ATAATATTA
1 AAAATATTT
7441028 AAAATATATT
1 AAAATAT-TT
*
7441038 -TAATATTT
1 AAAATATTT
7441046 AAAA
1 AAAA
7441050 AATAATTTGA
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
8 2 0.03
9 27 0.44
10 33 0.53
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (9 bp):
AAAATATTT
Found at i:7440974 original size:19 final size:19
Alignment explanation
Indices: 7440961--7441065 Score: 72
Period size: 19 Copynumber: 5.4 Consensus size: 19
7440951 TAAATTTTAA
*
7440961 AAAATATT-TAAAATCATTT
1 AAAATATTAAAAAAT-ATTT
7440980 AAAATATTAAAAAATATTT
1 AAAATATTAAAAAATATTT
* ** *
7440999 TAAATCATT-TTAAATGTTTT
1 AAAAT-ATTAAAAAAT-ATTT
*
7441019 ATAATATTAAAAATATATTT
1 AAAATATTAAAAA-ATATTT
*
7441039 AATAT-TTAAAAAATAATTT
1 AAAATATTAAAAAAT-ATTT
7441058 GAAAATAT
1 -AAAATAT
7441066 ATTTTTAATA
Statistics
Matches: 65, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
18 2 0.03
19 34 0.52
20 26 0.40
21 3 0.05
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAATATTAAAAAATATTT
Found at i:7440984 original size:29 final size:29
Alignment explanation
Indices: 7440952--7441063 Score: 102
Period size: 29 Copynumber: 3.8 Consensus size: 29
7440942 AATTCTATGT
7440952 AAATTTTAAAAAATATTTAAAATCATTTA
1 AAATTTTAAAAAATATTTAAAATCATTTA
* * *
7440981 AAATATTAAAAAATATTTTAAATCATTTT
1 AAATTTTAAAAAATATTTAAAATCATTTA
* * * *
7441010 AAATGTTT-TATAATATTAAAAATATATTTA
1 AAAT-TTTAAAAAATATTTAAAAT-CATTTA
*
7441040 ATA-TTTAAAAAATAATTTGAAAAT
1 AAATTTTAAAAAAT-ATTT-AAAAT
7441064 ATATTTTTAA
Statistics
Matches: 64, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
28 3 0.05
29 45 0.70
30 11 0.17
31 5 0.08
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
AAATTTTAAAAAATATTTAAAATCATTTA
Found at i:7441066 original size:31 final size:34
Alignment explanation
Indices: 7441019--7441108 Score: 98
Period size: 35 Copynumber: 2.7 Consensus size: 34
7441009 TAAATGTTTT
7441019 ATAATATTAAAAATATA-TTTAATATTTA-AAAA
1 ATAATATTAAAAATATATTTTAATATTTATAAAA
*
7441051 ATAAT-TTGAAAATATATTTTTAATATTTATAAAAA
1 ATAATATTAAAAATATA-TTTTAATATTTAT-AAAA
* *
7441086 ATTATATTATAAAACAT-TTTTAA
1 ATAATATTA-AAAATATATTTTAA
7441109 AAAGTACATT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
31 10 0.21
32 5 0.10
33 11 0.23
35 14 0.29
36 2 0.04
37 6 0.12
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (34 bp):
ATAATATTAAAAATATATTTTAATATTTATAAAA
Found at i:7444607 original size:30 final size:30
Alignment explanation
Indices: 7444555--7444647 Score: 132
Period size: 30 Copynumber: 3.1 Consensus size: 30
7444545 GGTCAAATGG
* * * *
7444555 ACTCGAACCGCCTATATTCGGGTGATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
*
7444585 ACTTGAACCACCCATGTCCGGGTGATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
*
7444615 ACTCGAACCACCCATGTCCGGGTTATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
7444645 ACT
1 ACT
7444648 GCTCTGGGAC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (30 bp):
ACTCGAACCACCCATGTCCGGGTGATATGA
Found at i:7449294 original size:6 final size:6
Alignment explanation
Indices: 7449264--7449319 Score: 60
Period size: 6 Copynumber: 9.5 Consensus size: 6
7449254 AATAAAAAAA
* * * *
7449264 TATATT TA-ATA TATATA TATTTT TAAATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
*
7449311 TAAATT TAT
1 TATATT TAT
7449320 TAATGGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
5 4 0.10
6 37 0.90
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (6 bp):
TATATT
Found at i:7449449 original size:21 final size:21
Alignment explanation
Indices: 7449421--7449464 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
7449411 TTAAAAAAAG
7449421 AATTT-AAAAATAATATT-TAA
1 AATTTAAAAAAT-ATATTATAA
7449441 AATTGTAAAAAATATATTATAA
1 AATT-TAAAAAATATATTATAA
7449463 AA
1 AA
7449465 CATTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.19
21 6 0.29
22 11 0.52
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AATTTAAAAAATATATTATAA
Found at i:7449570 original size:34 final size:33
Alignment explanation
Indices: 7449513--7449590 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 33
7449503 ATAAAATAAA
*
7449513 TAAACAAAATAAAATAAGAAAAAA-ACATAAAATT
1 TAAA-AAAATAAAAAAAGAAAAAAGACA-AAAATT
* * *
7449547 TCAAAAAAGTAAAAAAAGGAAAAAGACAAAATTT
1 T-AAAAAAATAAAAAAAGAAAAAAGACAAAAATT
7449581 TAAAAAAATA
1 TAAAAAAATA
7449591 TTTAAAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
33 8 0.22
34 23 0.62
35 6 0.16
ACGTcount: A:0.72, C:0.05, G:0.06, T:0.17
Consensus pattern (33 bp):
TAAAAAAATAAAAAAAGAAAAAAGACAAAAATT
Found at i:7449619 original size:27 final size:28
Alignment explanation
Indices: 7449589--7449652 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 28
7449579 TTTAAAAAAA
* * *
7449589 TATTTAAAATATTATGATTTCTTATAT-
1 TATTTAAAAAATTATAATTTCTTAAATG
*
7449616 TA-TTAAAAAATTATAATTTTTTAAATG
1 TATTTAAAAAATTATAATTTCTTAAATG
7449643 TATTTAAAAA
1 TATTTAAAAA
7449653 TTGTATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 20 0.65
27 4 0.13
28 7 0.23
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (28 bp):
TATTTAAAAAATTATAATTTCTTAAATG
Found at i:7449660 original size:26 final size:26
Alignment explanation
Indices: 7449589--7449654 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
7449579 TTTAAAAAAA
* *
7449589 TATTTAAAATATTATGATTTCTTATAT
1 TATTTAAAA-ATTATAATTTCTTAAAT
* *
7449616 TATTAAAAAATTATAATTTTTTAAAT
1 TATTTAAAAATTATAATTTCTTAAAT
7449642 GTATTTAAAAATT
1 -TATTTAAAAATT
7449655 GTATTTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (26 bp):
TATTTAAAAATTATAATTTCTTAAAT
Found at i:7449834 original size:16 final size:18
Alignment explanation
Indices: 7449804--7449851 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
7449794 CAAAAAAAAA
*
7449804 TATATT-AAATATATATT
1 TATATTAAAATTTATATT
7449821 T-T-TTAAAATTTATATT
1 TATATTAAAATTTATATT
*
7449837 TATATTTAAATTTAT
1 TATATTAAAATTTAT
7449852 TAATAGTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.08
16 12 0.46
17 2 0.08
18 10 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATATTAAAATTTATATT
Found at i:7450140 original size:21 final size:21
Alignment explanation
Indices: 7450115--7450201 Score: 63
Period size: 22 Copynumber: 4.0 Consensus size: 21
7450105 TAAAAAATAT
7450115 TTTTAAAAATAATAATTAAAA
1 TTTTAAAAATAATAATTAAAA
*
7450136 TTTTAAAAA-AATATTATAAAACA
1 TTTTAAAAATAATA--ATTAAA-A
*
7450159 TTTTAAATAT-AT-ATTACAAA
1 TTTTAAAAATAATAATTA-AAA
*
7450179 TTTTTTAAAATTAATAATATAAA
1 --TTTTAAAAATAATAAT-TAAA
7450202 TTAAATAAGC
Statistics
Matches: 51, Mismatches: 5, Indels: 17
0.70 0.07 0.23
Matches are distributed among these distances:
20 8 0.16
21 11 0.22
22 13 0.25
23 13 0.25
24 4 0.08
25 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TTTTAAAAATAATAATTAAAA
Found at i:7450202 original size:23 final size:22
Alignment explanation
Indices: 7450113--7450203 Score: 62
Period size: 23 Copynumber: 4.1 Consensus size: 22
7450103 GTTAAAAAAT
*
7450113 ATTTTTAAAAATAATAAT-TAA
1 ATTTTTTAAAATAATAATATAA
* * *
7450134 A-ATTTTAAAAAAATATTATAAA
1 ATTTTTTAAAATAATAATAT-AA
** * *
7450156 ACATTTT-AAATATATATTACAA
1 ATTTTTTAAAATA-ATAATATAA
7450178 ATTTTTTAAAATTAATAATATAA
1 ATTTTTTAAAA-TAATAATATAA
7450201 ATT
1 ATT
7450204 AAATAAGCAA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
20 12 0.22
21 2 0.04
22 14 0.26
23 24 0.44
24 2 0.04
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTTTTAAAATAATAATATAA
Found at i:7450231 original size:36 final size:37
Alignment explanation
Indices: 7450191--7450264 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
7450181 TTTTAAAATT
*
7450191 AATAATAT-AAA-TTAAATAAGCAAAATAAAT-TAAGAA
1 AATAATATAAAACTTAAAAAAG-AAAA-AAATCTAAGAA
7450227 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
1 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
7450264 A
1 A
7450265 GAGACAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 12 0.35
37 14 0.41
38 8 0.24
ACGTcount: A:0.69, C:0.04, G:0.05, T:0.22
Consensus pattern (37 bp):
AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
Found at i:7450236 original size:18 final size:18
Alignment explanation
Indices: 7450186--7450237 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
7450176 AAATTTTTTA
*
7450186 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
** *
7450204 AAATAAGCAAAATAAATT
1 AAATAAATAATATAAATT
7450222 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
7450238 ACTTAAAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:7450294 original size:9 final size:9
Alignment explanation
Indices: 7450280--7450312 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
7450270 AAAATATAAG
7450280 AAAAAAAGT
1 AAAAAAAGT
7450289 AAAAAAA-T
1 AAAAAAAGT
7450297 AAAAAAAGT
1 AAAAAAAGT
7450306 AAAAAAA
1 AAAAAAA
7450313 AATATAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:7450302 original size:17 final size:17
Alignment explanation
Indices: 7450280--7450312 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7450270 AAAATATAAG
7450280 AAAAAAAGTAAAAAAAT
1 AAAAAAAGTAAAAAAAT
7450297 AAAAAAAGTAAAAAAA
1 AAAAAAAGTAAAAAAA
7450313 AATATAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (17 bp):
AAAAAAAGTAAAAAAAT
Found at i:7450869 original size:30 final size:30
Alignment explanation
Indices: 7450833--7450980 Score: 296
Period size: 30 Copynumber: 4.9 Consensus size: 30
7450823 TGTGATTAAA
7450833 TTAGATGTTTGGAGGTGAGTGCTACTAACT
1 TTAGATGTTTGGAGGTGAGTGCTACTAACT
7450863 TTAGATGTTTGGAGGTGAGTGCTACTAACT
1 TTAGATGTTTGGAGGTGAGTGCTACTAACT
7450893 TTAGATGTTTGGAGGTGAGTGCTACTAACT
1 TTAGATGTTTGGAGGTGAGTGCTACTAACT
7450923 TTAGATGTTTGGAGGTGAGTGCTACTAACT
1 TTAGATGTTTGGAGGTGAGTGCTACTAACT
7450953 TTAGATGTTTGGAGGTGAGTGCTACTAA
1 TTAGATGTTTGGAGGTGAGTGCTACTAA
7450981 TTTTTTTTTA
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 118 1.00
ACGTcount: A:0.24, C:0.09, G:0.30, T:0.36
Consensus pattern (30 bp):
TTAGATGTTTGGAGGTGAGTGCTACTAACT
Found at i:7451725 original size:23 final size:23
Alignment explanation
Indices: 7451666--7451725 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
7451656 AAAAATATTT
* * * *
7451666 AAAATTGTTAAAAAATATATTAT
1 AAAATTTTTAAAATATACATTAC
*
7451689 AAAACATTTT-AAATATACATTAC
1 AAAA-TTTTTAAAATATACATTAC
7451712 AAAATTTTTAAAAT
1 AAAATTTTTAAAAT
7451726 TAATAATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
22 4 0.14
23 22 0.76
24 3 0.10
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (23 bp):
AAAATTTTTAAAATATACATTAC
Found at i:7451858 original size:26 final size:27
Alignment explanation
Indices: 7451818--7451883 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 27
7451808 TTTAAAAAAA
* *
7451818 TATTTAAAATATTATGATTTCTTATAT-
1 TATTTAAAA-ATTATAATTTCTTAAATG
*
7451845 TA-TTAAAAAGTTATAATTTTTTAAATG
1 TATTTAAAAA-TTATAATTTCTTAAATG
7451872 TATTTAAAAATT
1 TATTTAAAAATT
7451884 GTATTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 1 0.03
26 19 0.58
27 6 0.18
28 7 0.21
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (27 bp):
TATTTAAAAATTATAATTTCTTAAATG
Found at i:7452057 original size:22 final size:22
Alignment explanation
Indices: 7452033--7452073 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
7452023 CAAAAAAAGA
7452033 AAAAAAATATTTA-ATATTTAT
1 AAAAAAATATTTATATATTTAT
*
7452054 AAAATAATATTTATATATTT
1 AAAAAAATATTTATATATTT
7452074 TTTTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AAAAAAATATTTATATATTTAT
Found at i:7452428 original size:23 final size:23
Alignment explanation
Indices: 7452364--7452444 Score: 78
Period size: 22 Copynumber: 3.6 Consensus size: 23
7452354 ATAAAGTTAA
*
7452364 AAAATATTTTCAAAAATA-ATAAT
1 AAAATATTTT-AAAAATATATTAT
* *
7452387 TAAAT-TTTTAAAAAAATATTAT
1 AAAATATTTTAAAAATATATTAT
*
7452409 AAAATATTTTAAATATATATTA-
1 AAAATATTTTAAAAATATATTAT
* *
7452431 CAAATTTTTTAAAA
1 AAAATATTTTAAAA
7452445 TTAATAATAT
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
21 6 0.13
22 23 0.49
23 18 0.38
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAATATTTTAAAAATATATTAT
Found at i:7452458 original size:23 final size:22
Alignment explanation
Indices: 7452376--7452459 Score: 75
Period size: 23 Copynumber: 3.8 Consensus size: 22
7452366 AATATTTTCA
7452376 AAAATAATAAT-TAAA-TTTTT
1 AAAATAATAATATAAATTTTTT
* * *
7452396 AAAAAAATATTATAAAATATTTT
1 AAAATAATAATAT-AAATTTTTT
* *
7452419 -AAATATATATTACAAATTTTTT
1 AAAATA-ATAATATAAATTTTTT
7452441 AAAATTAATAATATAAATT
1 AAAA-TAATAATATAAATT
7452460 AAATAAGAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
20 9 0.18
21 1 0.02
22 15 0.30
23 23 0.46
24 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATAATAATATAAATTTTTT
Done.