Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000482.1 Hibiscus syriacus cultivar Beakdansim tig00000916_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: 2886609
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 16
Found at i:2511611 original size:19 final size:18
Alignment explanation
Indices: 2511587--2511655 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 18
2511577 ATATTATTAA
2511587 ATTATTAATAATGAATAAT
1 ATTATTAATAAT-AATAAT
* *
2511606 ATTATTTAT-ATATTTAAT
1 ATTATTAATAATA-ATAAT
2511624 ATTAATATAATAATCTAATAAT
1 ATT-AT-TAATAA--TAATAAT
2511646 ATT-TTAATAA
1 ATTATTAATAA
2511656 ATATATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
17 1 0.03
18 9 0.22
19 16 0.40
20 4 0.10
21 1 0.03
22 7 0.17
23 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
ATTATTAATAATAATAAT
Found at i:2511630 original size:27 final size:27
Alignment explanation
Indices: 2511550--2511635 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
2511540 AATAAAATTT
* *
2511550 ATATTATTTAT-TAATTTCATAGAAATA
1 ATATTATTTATAT-ATTTAATATAAATA
* *
2511577 ATATTA-TTAAAT-TATTAATAATGAATA
1 ATATTATTTATATAT-TTAAT-ATAAATA
2511604 ATATTATTTATATATTTAATATTAATATA
1 ATATTATTTATATATTTAATA-TAA-ATA
2511633 ATA
1 ATA
2511636 ATCTAATAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 19 0.41
28 12 0.26
29 7 0.15
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (27 bp):
ATATTATTTATATATTTAATATAAATA
Found at i:2511669 original size:23 final size:23
Alignment explanation
Indices: 2511622--2511703 Score: 76
Period size: 23 Copynumber: 3.4 Consensus size: 23
2511612 TATATATTTA
*
2511622 ATATTAATATAATA-ATCTAATAAT
1 ATATTAATA-AATATATTTAA-AAT
*
2511646 ATTTTAATAAATATATTTAAAAT
1 ATATTAATAAATATATTTAAAAT
* * *
2511669 ATACTAATTAATATTTTTAAAAT
1 ATATTAATAAATATATTTAAAAT
2511692 ATAATATAATAA
1 AT-AT-TAATAA
2511704 TATTACTTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
23 28 0.60
24 14 0.30
25 5 0.11
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
ATATTAATAAATATATTTAAAAT
Found at i:2511701 original size:21 final size:21
Alignment explanation
Indices: 2511613--2511707 Score: 70
Period size: 23 Copynumber: 4.3 Consensus size: 21
2511603 AATATTATTT
*
2511613 ATATATTTAATAT-TAATATA
1 ATATATTTAAAATATAATATA
*
2511633 ATA-ATCTAATAATATTTTAATA-A
1 ATATATTTAA-AATA---TAATATA
*
2511656 ATATATTTAAAATATACTAATTA
1 ATATATTTAAAATATAAT-A-TA
*
2511679 ATATTTTTAAAATATAATATA
1 ATATATTTAAAATATAATATA
2511700 ATAATATT
1 AT-ATATT
2511708 ACTTTAATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
19 5 0.09
20 8 0.14
21 5 0.09
22 5 0.09
23 25 0.43
24 10 0.17
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
ATATATTTAAAATATAATATA
Found at i:2511828 original size:20 final size:19
Alignment explanation
Indices: 2511790--2511828 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
2511780 TAATAAAATT
*
2511790 ATAAAAAAATATTTTAATA
1 ATAAAAAAATATGTTAATA
*
2511809 ATAAATAAATTATGTTAATA
1 ATAAA-AAAATATGTTAATA
2511829 TTAACAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
ATAAAAAAATATGTTAATA
Found at i:2519891 original size:24 final size:21
Alignment explanation
Indices: 2519848--2519891 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
2519838 TATGAATTTA
2519848 AAATTTTTAAAGAAAATATAT
1 AAATTTTTAAAGAAAATATAT
*
2519869 AAATTATTTATAGTAAAAT-TAT
1 AAATT-TTTAAAG-AAAATATAT
2519891 A
1 A
2519892 GTAGAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 10 0.50
23 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (21 bp):
AAATTTTTAAAGAAAATATAT
Found at i:2520061 original size:51 final size:51
Alignment explanation
Indices: 2519985--2520095 Score: 213
Period size: 51 Copynumber: 2.2 Consensus size: 51
2519975 ACCAAACACT
*
2519985 GTAATCTTATATTCCTGTTAAACGAACTAAACACAAAATATAACATTCCCA
1 GTAATCTTACATTCCTGTTAAACGAACTAAACACAAAATATAACATTCCCA
2520036 GTAATCTTACATTCCTGTTAAACGAACTAAACACAAAATATAACATTCCCA
1 GTAATCTTACATTCCTGTTAAACGAACTAAACACAAAATATAACATTCCCA
2520087 GTAATCTTA
1 GTAATCTTA
2520096 TTCTTGCCGA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.30
Consensus pattern (51 bp):
GTAATCTTACATTCCTGTTAAACGAACTAAACACAAAATATAACATTCCCA
Found at i:2521870 original size:20 final size:18
Alignment explanation
Indices: 2521837--2521873 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2521827 GAATAAACAA
2521837 ATATTATTTATTATATAT
1 ATATTATTTATTATATAT
2521855 ATATATATTTATT-TATAT
1 ATAT-TATTTATTATATAT
2521873 A
1 A
2521874 AATAATAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATTATTTATTATATAT
Found at i:2521916 original size:39 final size:38
Alignment explanation
Indices: 2521873--2521980 Score: 103
Period size: 39 Copynumber: 2.7 Consensus size: 38
2521863 TTATTTATAT
2521873 AAATAATAAGAATAATAATAAAAAGTAATAATA-AAAATA
1 AAATAATAAGAATAATAATAAAAA-T-ATAATATAAAATA
*
2521912 AAATAATATTGCAAATAATAATTAAAAATATAATATTAAAATA
1 AAATAATA-AG--AATAATAA-TAAAAATATAATA-TAAAATA
* *
2521955 AAA-AATAAAAAAAATAATCAAAAATA
1 AAATAATAAGAATAATAAT-AAAAATA
2521981 AAATTTGAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
38 1 0.02
39 22 0.38
40 1 0.02
41 6 0.10
42 13 0.22
43 15 0.26
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (38 bp):
AAATAATAAGAATAATAATAAAAATATAATATAAAATA
Found at i:2521932 original size:26 final size:25
Alignment explanation
Indices: 2521899--2521964 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
2521889 AATAAAAAGT
*
2521899 AATAATAAAAATAAAATAATATTGCA
1 AATAATAAAAATAAAATAATATT-AA
*
2521925 AATAATAATTAAA-AATATAATATTAA
1 AATAATAA--AAATAAAATAATATTAA
2521951 AAT-A-AAAAATAAAA
1 AATAATAAAAATAAAA
2521965 AAAATAATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
22 3 0.09
23 3 0.09
24 2 0.06
25 1 0.03
26 12 0.35
27 10 0.29
28 3 0.09
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (25 bp):
AATAATAAAAATAAAATAATATTAA
Found at i:2521944 original size:27 final size:26
Alignment explanation
Indices: 2521914--2521965 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
2521904 TAAAAATAAA
* * *
2521914 ATAATATTGCAAATAATAATTAAAAAT
1 ATAATATT-AAAATAAAAAATAAAAAT
2521941 ATAATATTAAAATAAAAAATAAAAA
1 ATAATATTAAAATAAAAAATAAAAA
2521966 AAATAATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (26 bp):
ATAATATTAAAATAAAAAATAAAAAT
Found at i:2521952 original size:13 final size:15
Alignment explanation
Indices: 2521884--2521980 Score: 52
Period size: 13 Copynumber: 7.1 Consensus size: 15
2521874 AATAATAAGA
2521884 ATAATAA-TAAAAA-
1 ATAATAATTAAAAAT
*
2521897 GTAATAA-TAAAAAT
1 ATAATAATTAAAAAT
* ***
2521911 AAAATAATATTGCAA-
1 ATAATAAT-TAAAAAT
2521926 ATAATAATTAAAAAT
1 ATAATAATTAAAAAT
2521941 ATAAT-ATT-AAAAT
1 ATAATAATTAAAAAT
*
2521954 A-AA-AAATAAAAA-
1 ATAATAATTAAAAAT
*
2521966 A-AATAATCAAAAAT
1 ATAATAATTAAAAAT
2521980 A
1 A
2521981 AAATTTGAAT
Statistics
Matches: 63, Mismatches: 13, Indels: 15
0.69 0.14 0.16
Matches are distributed among these distances:
12 7 0.11
13 29 0.46
14 12 0.19
15 12 0.19
16 3 0.05
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (15 bp):
ATAATAATTAAAAAT
Found at i:2521970 original size:42 final size:41
Alignment explanation
Indices: 2521873--2521972 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 41
2521863 TTATTTATAT
*
2521873 AAATAATAAGAATAATAATAAAAAGTAATAATAAAAATAAA
1 AAATAATAAAAATAATAATAAAAAGTAATAATAAAAATAAA
* **
2521914 ATAATATTGCAAATAATAATTAAAAA-T-ATAATATTAAAATAAA
1 A-AATAATAAAAATAATAA-TAAAAAGTAATAATA--AAAATAAA
*
2521957 AAATAAAAAAAATAAT
1 AAATAATAAAAATAAT
2521973 CAAAAATAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
41 7 0.15
42 25 0.53
43 15 0.32
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (41 bp):
AAATAATAAAAATAATAATAAAAAGTAATAATAAAAATAAA
Found at i:2523095 original size:3 final size:3
Alignment explanation
Indices: 2523087--2523154 Score: 77
Period size: 3 Copynumber: 22.0 Consensus size: 3
2523077 AATTATTTTT
*
2523087 TAA TAA TAA TAC TAA T-A TATA TAA TAA T-A TATA TATA TATA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA-A TA-A TA-A TAA TAA
2523134 TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
2523155 ATAAAATTGG
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
2 4 0.07
3 41 0.69
4 14 0.24
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:2523596 original size:40 final size:40
Alignment explanation
Indices: 2523517--2523650 Score: 216
Period size: 40 Copynumber: 3.4 Consensus size: 40
2523507 GAACAAAATT
* *
2523517 TTCTCATGATGAACTTCTTCTTC-CTCTTCAGATAAGTTC
1 TTCTCATTATGAACTTCTTCTTCTTTCTTCAGATAAGTTC
2523556 TTCTCATTATGAACTTCTTCTTCTTTCTTCAGATAAGTTC
1 TTCTCATTATGAACTTCTTCTTCTTTCTTCAGATAAGTTC
*
2523596 TTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTC
1 TTCTCATTATGAACTTCTTCTTCTTTCTTCAGATAAGTTC
* *
2523636 TTTTTATTATGAACT
1 TTCTCATTATGAACT
2523651 CTACCTGGCA
Statistics
Matches: 89, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 22 0.25
40 67 0.75
ACGTcount: A:0.20, C:0.22, G:0.09, T:0.49
Consensus pattern (40 bp):
TTCTCATTATGAACTTCTTCTTCTTTCTTCAGATAAGTTC
Found at i:2523794 original size:113 final size:113
Alignment explanation
Indices: 2523590--2524245 Score: 1120
Period size: 113 Copynumber: 5.8 Consensus size: 113
2523580 TTCTTCAGAT
* * * *
2523590 AAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTTTTATTATGAACTCTAC
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
* * * *
2523655 CTGGCAATGCTGATCCATC-AAGTGATGGATTTGAA-CAAAAAGTTGAAC
66 CTGGTAATGCTGATCCATCGAA-TGAT-GAATTCAAGCGAAAAGTTGAAC
* *
2523703 AAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAATTCTTCTCATTATGAACTCGAC
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
*
2523768 CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTTAAC
66 CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAAC
2523816 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
2523881 CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAAC
66 CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAAC
*
2523929 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCGAC
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
2523994 CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAAC
66 CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAAC
* *
2524042 AAGTTCCTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTCGAC
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
*
2524107 CTGGTAATGCTGATCCATCGAATGATGAATTCAAGTGAAAAGTTGAAC
66 CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAAC
2524155 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
* *
2524220 CTGG-AATGTTGATCCATTGAATGATG
66 CTGGTAATGCTGATCCATCGAATGATG
2524246 GATTTGAAGT
Statistics
Matches: 518, Mismatches: 23, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
112 26 0.05
113 490 0.95
114 2 0.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.37
Consensus pattern (113 bp):
AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAAC
Found at i:2524676 original size:22 final size:22
Alignment explanation
Indices: 2524651--2524705 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
2524641 GATAAAGCTT
*
2524651 TCATCTTTGAAAAGAGAATATG
1 TCATCTTTGAAAAGAGAATATA
* * *
2524673 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATATA
2524695 TCATCTTTGAA
1 TCATCTTTGAA
2524706 GAGTGTAGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATATA
Found at i:2525600 original size:23 final size:23
Alignment explanation
Indices: 2525574--2525618 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2525564 CACCACAGCT
*
2525574 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
2525597 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
2525619 ATATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:2525839 original size:149 final size:148
Alignment explanation
Indices: 2525586--2525899 Score: 468
Period size: 149 Copynumber: 2.1 Consensus size: 148
2525576 TATAATTGCA
2525586 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
* * * * * *
2525650 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAAGGACCAAGTATGTGCCTCA-AAGACCTCACAAATGTT
* * *
2525715 CCACATAATATATATATATC
129 CCAAAGAATATACATATATC
* *
2525735 CCGAAGGACCGCGTAGAATTGTACCGTAGTGCCATATAATAATGTCCCTAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
* * *
2525800 TCCTTAAGAATCATATACATATACTAAGGACCAATTATGTGCCTCAAATACCTCATAAATGTTCC
66 TCCTTAAGAATCATATACATATACTAAGGACCAAGTATGTGCCTCAAAGACCTCACAAATGTTCC
*
2525865 AAAGAATATACATATGTC
131 AAAGAATATACATATATC
2525883 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
2525900 CCCTCGACTC
Statistics
Matches: 149, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
148 47 0.32
149 102 0.68
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (148 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAAGGACCAAGTATGTGCCTCAAAGACCTCACAAATGTTCC
AAAGAATATACATATATC
Found at i:2527291 original size:64 final size:63
Alignment explanation
Indices: 2527193--2527353 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 63
2527183 TAATGAAGGT
* *
2527193 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTT-AATGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAT--
*
2527256 GG
62 GC
*
2527258 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
* *
2527322 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
2527354 CCTTAAACAA
Statistics
Matches: 86, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
63 1 0.01
64 58 0.67
65 24 0.28
66 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
Found at i:2528431 original size:26 final size:26
Alignment explanation
Indices: 2528402--2528455 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
2528392 TATAATGTCA
2528402 CTCATCACTCTATATCATAAATCCAT
1 CTCATCACTCTATATCATAAATCCAT
2528428 CTCATCACTCTATATCATAAATCCAT
1 CTCATCACTCTATATCATAAATCCAT
2528454 CT
1 CT
2528456 ATTTCTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.35
Consensus pattern (26 bp):
CTCATCACTCTATATCATAAATCCAT
Found at i:2530924 original size:149 final size:148
Alignment explanation
Indices: 2530682--2530987 Score: 504
Period size: 149 Copynumber: 2.1 Consensus size: 148
2530672 CACCAAAGTG
2530682 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAG
* * * * * * *
2530747 AATCATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAAT
66 AATCATATACATATACTAAGGACCAAGTATGTGCCTCA-AAGACCTCACAAATGTTCCAAAGAAT
*
2530812 ATATATATATCCCGAAGGA
130 ATACATATATCCCGAAGGA
* *
2530831 CCGCGTAGAATTGTACCGTAGTGCCATATAATAATGTCCCTAAGGACCACATATTATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAG
*
2530896 AATCATATACATATACTAAGGACCAAGTATGTGCCTCAAAGACCTCATAAATGTTCCAAAGAATA
66 AATCATATACATATACTAAGGACCAAGTATGTGCCTCAAAGACCTCACAAATGTTCCAAAGAATA
2530961 TACATATATCCCGAAGGA
131 TACATATATCCCGAAGGA
2530979 CCGCGTAGA
1 CCGCGTAGA
2530988 CCCTCGACTC
Statistics
Matches: 146, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
148 49 0.34
149 97 0.66
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (148 bp):
CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAG
AATCATATACATATACTAAGGACCAAGTATGTGCCTCAAAGACCTCACAAATGTTCCAAAGAATA
TACATATATCCCGAAGGA
Found at i:2531540 original size:2 final size:2
Alignment explanation
Indices: 2531533--2531560 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2531523 TCTCTTAGAC
2531533 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2531561 TCACATGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2532514 original size:64 final size:63
Alignment explanation
Indices: 2532416--2532576 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 63
2532406 TAATGAAGGT
* *
2532416 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTT-AATGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAT--
*
2532479 GG
62 GC
*
2532481 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
* *
2532545 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
2532577 CCTTAAACAA
Statistics
Matches: 86, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
63 1 0.01
64 58 0.67
65 24 0.28
66 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
Found at i:2533662 original size:26 final size:26
Alignment explanation
Indices: 2533633--2533686 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
2533623 TATAATGTCA
2533633 CTCATCACTCTATATCATAAATCCAT
1 CTCATCACTCTATATCATAAATCCAT
2533659 CTCATCACTCTATATCATAAATCCAT
1 CTCATCACTCTATATCATAAATCCAT
2533685 CT
1 CT
2533687 ATTTCTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.35
Consensus pattern (26 bp):
CTCATCACTCTATATCATAAATCCAT
Found at i:2536762 original size:2 final size:2
Alignment explanation
Indices: 2536755--2536788 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2536745 TCTCTTAGAC
2536755 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2536789 TCACATGTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2537742 original size:64 final size:63
Alignment explanation
Indices: 2537644--2537804 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 63
2537634 TAATGAAGGT
* *
2537644 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTT-AATGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAT--
*
2537707 GG
62 GC
*
2537709 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
* *
2537773 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
2537805 CCTTAAACAA
Statistics
Matches: 86, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
63 1 0.01
64 58 0.67
65 24 0.28
66 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
Found at i:2541172 original size:114 final size:114
Alignment explanation
Indices: 2540972--2541191 Score: 329
Period size: 114 Copynumber: 1.9 Consensus size: 114
2540962 GATTATGCAG
* * *
2540972 TTCATCTTTCAATTCCAATGATTAGTTATGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTAAATTCCAATGATTAGTTATGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
2541037 ACACTTCCAGAAGATGCTATTGGGTC-TCTTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTC-TTATTTCTACTATGAGCAAA
* * * *
2541086 TTCATCTTTTAAATT-CAATGATTGGTTTTGGGGTTTATACCAAACC-GAATCAGATAGCTCAAA
1 TTCATC-TTTAAATTCCAATGATTAGTTATGGGGTTCATACCAAACCAG-ATCAGATAACTCAAA
2541149 GAACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTA
64 GAACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTA
2541192 CGAGAACGTG
Statistics
Matches: 96, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
113 1 0.01
114 86 0.90
115 9 0.09
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.35
Consensus pattern (114 bp):
TTCATCTTTAAATTCCAATGATTAGTTATGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
Found at i:2543328 original size:8 final size:8
Alignment explanation
Indices: 2543315--2543406 Score: 57
Period size: 10 Copynumber: 10.9 Consensus size: 8
2543305 CCTGGTTCAA
2543315 TTTTTTCC
1 TTTTTTCC
2543323 TTTTTTCC
1 TTTTTTCC
2543331 TTTTTTTTCTC
1 --TTTTTTC-C
2543342 ATTTTTT-C
1 -TTTTTTCC
*
2543350 TCATTTTCC
1 T-TTTTTCC
2543359 -TTTTTCATC
1 TTTTTTC--C
2543368 TTTTTT-C
1 TTTTTTCC
*
2543375 TTTTTTTC
1 TTTTTTCC
2543383 -TTTTTCC
1 TTTTTTCC
2543390 TCATTTTTCC
1 T--TTTTTCC
2543400 TTTTTTC
1 TTTTTTC
2543407 ATAATTTTTT
Statistics
Matches: 68, Mismatches: 4, Indels: 24
0.71 0.04 0.25
Matches are distributed among these distances:
7 19 0.28
8 20 0.29
9 2 0.03
10 26 0.38
11 1 0.01
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTTTCC
Found at i:2543346 original size:10 final size:10
Alignment explanation
Indices: 2543333--2543426 Score: 53
Period size: 8 Copynumber: 9.8 Consensus size: 10
2543323 TTTTTTCCTT
2543333 TTTTTTCTCA
1 TTTTTTCTCA
2543343 TTTTTTCTCA
1 TTTTTTCTCA
*
2543353 TTTTCCTTTTTCA
1 -TTT--TTTCTCA
2543366 TCTTTTT-TC-
1 T-TTTTTCTCA
2543375 TTTTTT-TC-
1 TTTTTTCTCA
*
2543383 TTTTTCCTCA
1 TTTTTTCTCA
2543393 -TTTTTC-C-
1 TTTTTTCTCA
*
2543400 TTTTTTCATAA
1 TTTTTTC-TCA
2543411 TTTTTT-TC-
1 TTTTTTCTCA
2543419 TTTTTTCT
1 TTTTTTCT
2543427 TTCTTTGCTG
Statistics
Matches: 68, Mismatches: 5, Indels: 23
0.71 0.05 0.24
Matches are distributed among these distances:
8 25 0.37
9 10 0.15
10 12 0.18
11 12 0.18
12 1 0.01
13 8 0.12
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTTTCTCA
Found at i:2543364 original size:15 final size:15
Alignment explanation
Indices: 2543344--2543390 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
2543334 TTTTTCTCAT
*
2543344 TTTTTCTCATTTTCC
1 TTTTTCTCTTTTTCC
*
2543359 TTTTTCATCTTTTTTC
1 TTTTTC-TCTTTTTCC
*
2543375 TTTTTTTCTTTTTCC
1 TTTTTCTCTTTTTCC
2543390 T
1 T
2543391 CATTTTTCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTCTCTTTTTCC
Found at i:2543371 original size:25 final size:23
Alignment explanation
Indices: 2543334--2543398 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
2543324 TTTTTCCTTT
2543334 TTTTTCTCATTTTTTCTCATTTTCC
1 TTTTTCTC-TTTTTTCT-ATTTTCC
* *
2543359 TTTTTCATCTTTTTTCTTTTTTTC
1 TTTTTC-TCTTTTTTCTATTTTCC
*
2543383 TTTTTCCTCATTTTTC
1 TTTTT-CTCTTTTTTC
2543399 CTTTTTTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 18 0.51
25 15 0.43
26 2 0.06
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTCTCTTTTTTCTATTTTCC
Found at i:2543422 original size:8 final size:8
Alignment explanation
Indices: 2543315--2543428 Score: 52
Period size: 8 Copynumber: 13.4 Consensus size: 8
2543305 CCTGGTTCAA
*
2543315 TTTTTTCC
1 TTTTTTTC
*
2543323 TTTTTTCC
1 TTTTTTTC
2543331 TTTTTTTTC
1 -TTTTTTTC
2543340 TCATTTTTTC
1 T--TTTTTTC
**
2543350 TCATTTTC
1 TTTTTTTC
*
2543358 -CTTTTTC
1 TTTTTTTC
2543365 ATCTTTTTTC
1 -T-TTTTTTC
2543375 TTTTTTTC
1 TTTTTTTC
*
2543383 TTTTTCCTC
1 TTTTT-TTC
* *
2543392 ATTTTTCC
1 TTTTTTTC
*
2543400 TTTTTTCATAA
1 TTTTTT--T-C
2543411 TTTTTTTC
1 TTTTTTTC
2543419 -TTTTTTC
1 TTTTTTTC
2543426 TTT
1 TTT
2543429 CTTTGCTGGA
Statistics
Matches: 82, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
7 13 0.16
8 34 0.41
9 15 0.18
10 14 0.17
11 6 0.07
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTTTC
Found at i:2543442 original size:26 final size:26
Alignment explanation
Indices: 2543413--2543465 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
2543403 TTTCATAATT
2543413 TTTTTCTTTTTTCTTTCTTTGCTGGA
1 TTTTTCTTTTTTCTTTCTTTGCTGGA
2543439 TTTTTCTTTTTTCTTTCTTTGCTGGA
1 TTTTTCTTTTTTCTTTCTTTGCTGGA
2543465 T
1 T
2543466 GAGTGTAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.04, C:0.15, G:0.11, T:0.70
Consensus pattern (26 bp):
TTTTTCTTTTTTCTTTCTTTGCTGGA
Found at i:2546268 original size:6 final size:6
Alignment explanation
Indices: 2546254--2546309 Score: 51
Period size: 6 Copynumber: 9.5 Consensus size: 6
2546244 ATTATGTAAG
* * * * * *
2546254 AATGAA AATGTA AATATA AACGTA AA-GAA AATGCA AATGTA AATGCA
1 AATGTA AATGTA AATGTA AATGTA AATGTA AATGTA AATGTA AATGTA
2546301 AATGTA AAT
1 AATGTA AAT
2546310 ATGCAAATGT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
5 4 0.10
6 36 0.90
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.23
Consensus pattern (6 bp):
AATGTA
Found at i:2546297 original size:12 final size:12
Alignment explanation
Indices: 2546282--2546321 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
2546272 AACGTAAAGA
2546282 AAATGCAAATGT
1 AAATGCAAATGT
2546294 AAATGCAAATGT
1 AAATGCAAATGT
2546306 AAATATGCAAATGT
1 -AA-ATGCAAATGT
2546320 AA
1 AA
2546322 CAATAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.46
13 4 0.15
14 10 0.38
ACGTcount: A:0.53, C:0.07, G:0.15, T:0.25
Consensus pattern (12 bp):
AAATGCAAATGT
Found at i:2546377 original size:14 final size:14
Alignment explanation
Indices: 2546368--2546409 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
2546358 ATAAAAGTAT
2546368 AAATGCAAAATGTA
1 AAATGCAAAATGTA
* *
2546382 AAATGCAAGGATGCA
1 AAATGCAA-AATGTA
2546397 AAATGC-AAATGTA
1 AAATGCAAAATGTA
2546410 TGCATGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 4 0.17
14 9 0.39
15 10 0.43
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.19
Consensus pattern (14 bp):
AAATGCAAAATGTA
Found at i:2547918 original size:21 final size:20
Alignment explanation
Indices: 2547893--2547933 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2547883 TAAGTAATAA
2547893 AAAATTTGAAAGAAAAGAATT
1 AAAATTT-AAAGAAAAGAATT
* *
2547914 AAAATTTAAATAAATGAATT
1 AAAATTTAAAGAAAAGAATT
2547934 TTTAATTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (20 bp):
AAAATTTAAAGAAAAGAATT
Found at i:2548692 original size:2 final size:2
Alignment explanation
Indices: 2548685--2548718 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2548675 TATTATTTAT
*
2548685 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2548719 AATAATAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:2548777 original size:26 final size:24
Alignment explanation
Indices: 2548744--2548816 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 24
2548734 AATAAAAAGT
*
2548744 AATAATAATAATAAAATAATATTGCA
1 AATAATAATAA-AAAATAATATT-AA
2548770 AATAATAATTAAAAATATAATATTAA
1 AATAATAA-TAAAAA-ATAATATTAA
*
2548796 AATAAAAAATAAAAAAATAAT
1 AAT-AATAAT-AAAAAATAAT
2548817 CAAAAATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 21 0.51
27 20 0.49
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (24 bp):
AATAATAATAAAAAATAATATTAA
Found at i:2548778 original size:3 final size:3
Alignment explanation
Indices: 2548719--2548764 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
2548709 TATTTATATA
* *
2548719 AAT AAT AAG AAT AAT AAT AAA AAGT AAT AAT AAT AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT
2548764 A
1 A
2548765 TTGCAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.89
4 2 0.05
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:2549973 original size:3 final size:3
Alignment explanation
Indices: 2549965--2550027 Score: 67
Period size: 3 Copynumber: 21.0 Consensus size: 3
2549955 AATTATTTTT
* * *
2549965 TAA TAA TAA TAC TAA T-A TATA TAA TAA T-A TATA TAA TAA TTA TTA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA-A TAA TAA TAA TAA
2550010 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
2550028 ATAAATAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
2 4 0.08
3 42 0.81
4 6 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:2549989 original size:9 final size:8
Alignment explanation
Indices: 2549967--2550035 Score: 63
Period size: 9 Copynumber: 8.5 Consensus size: 8
2549957 TTATTTTTTA
2549967 ATAATAAT
1 ATAATAAT
2549975 ACTAATATAT
1 A-TAATA-AT
2549985 ATAATAAT
1 ATAATAAT
2549993 ATATATAAT
1 ATA-ATAAT
* *
2550002 A-ATTATT
1 ATAATAAT
2550009 ATAATAAT
1 ATAATAAT
2550017 AATAATAAT
1 -ATAATAAT
2550026 A-AATAA-
1 ATAATAAT
2550032 ATAA
1 ATAA
2550036 ATAAATAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
6 1 0.02
7 11 0.22
8 12 0.24
9 24 0.47
10 3 0.06
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (8 bp):
ATAATAAT
Found at i:2550038 original size:21 final size:22
Alignment explanation
Indices: 2549965--2550039 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
2549955 AATTATTTTT
* *
2549965 TAAT-AATAATACTAATATATA
1 TAATAAATAATAATAATAAATA
* *
2549986 TAATAATATATATAATAATTATTA
1 TAATAA-ATA-ATAATAATAAATA
2550010 TAAT-AATAATAATAATAAATA
1 TAATAAATAATAATAATAAATA
2550031 -AATAAATAA
1 TAATAAATAA
2550040 ATAAAATGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
20 3 0.07
21 20 0.45
22 4 0.09
23 4 0.09
24 13 0.30
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (22 bp):
TAATAAATAATAATAATAAATA
Found at i:2551141 original size:71 final size:71
Alignment explanation
Indices: 2550971--2551193 Score: 253
Period size: 71 Copynumber: 3.2 Consensus size: 71
2550961 AGGGTACTAG
*
2550971 ATTCACTTCTTAAAAGATCATAAAA-ACACA-G-GCGTTAC-AGCAACTTAAAAAGATCATCATA
1 ATTCACTTCTTAAAAGATCATAAAAGA-ACATGAGCGTTACGA-CAACATAAAAAGATCATCATA
*
2551032 TGATCCGA
64 TGATCCCA
* * * * * *
2551040 ATTCA---CTTAAAAGATCATAAAAGCACATGAGTGTTACGACAAAATAGAAGGATTATCATATG
1 ATTCACTTCTTAAAAGATCATAAAAGAACATGAGCGTTACGACAACATAAAAAGATCATCATATG
2551102 ATCCCA
66 ATCCCA
* * * * *
2551108 ATTCACTTCTTAAAAGATCATAAAAGAAAATGAGGGTTATGACAACATACAAAGATCAACATATG
1 ATTCACTTCTTAAAAGATCATAAAAGAACATGAGCGTTACGACAACATAAAAAGATCATCATATG
*
2551173 ATCCTA
66 ATCCCA
2551179 ATTCACTTCTTAAAA
1 ATTCACTTCTTAAAA
2551194 AAGCATAGAC
Statistics
Matches: 129, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
66 20 0.16
67 1 0.01
68 34 0.26
69 6 0.05
71 68 0.53
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.26
Consensus pattern (71 bp):
ATTCACTTCTTAAAAGATCATAAAAGAACATGAGCGTTACGACAACATAAAAAGATCATCATATG
ATCCCA
Found at i:2555328 original size:21 final size:21
Alignment explanation
Indices: 2555269--2555330 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
2555259 TATTGAACAG
*
2555269 TGCTACAGTGTACCGATACAT
1 TGCTACAGTGTACCGATGCAT
*
2555290 TGCTACAGTGCACCGATGCAT
1 TGCTACAGTGTACCGATGCAT
*
2555311 TGCTACAGTGTACTGATGCA
1 TGCTACAGTGTACCGATGCA
2555331 CAAAAACATC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (21 bp):
TGCTACAGTGTACCGATGCAT
Found at i:2555377 original size:21 final size:21
Alignment explanation
Indices: 2555352--2555395 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2555342 AATATAAATT
* *
2555352 GTGTATCGATGCACTGCTACA
1 GTGTACCGATGCACTACTACA
2555373 GTGTACCGATGCACTACTACA
1 GTGTACCGATGCACTACTACA
2555394 GT
1 GT
2555396 AACTTCAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (21 bp):
GTGTACCGATGCACTACTACA
Found at i:2555978 original size:22 final size:22
Alignment explanation
Indices: 2555928--2555978 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
2555918 CTAAGTGGCA
* *
2555928 TATGAAATTTGTCCCGAAGGATC
1 TATG-AATATGTCCCGAAGGACC
*
2555951 TGTGAATATGTCCCGAAGGACC
1 TATGAATATGTCCCGAAGGACC
2555973 TATGAA
1 TATGAA
2555979 ACCCTCAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (22 bp):
TATGAATATGTCCCGAAGGACC
Found at i:2558262 original size:58 final size:60
Alignment explanation
Indices: 2558189--2558324 Score: 168
Period size: 58 Copynumber: 2.3 Consensus size: 60
2558179 TCGAGCGACC
* * * * **
2558189 ATTTCATAAATTTTAATAGTCTAGGGACTCAACAAAGCAACTCCCTATAGTCTGGGA-TT
1 ATTTTATAACTTTTAATAGTCGAGAGACTCAACAAAGCAACTCCCTATAGTCTGAAATTT
* * * *
2558248 A-TTTGTAACTTTTAATAGTCGAGAGTCTCAACAAAGCAACTCCTTATAGTTTGAAATTT
1 ATTTTATAACTTTTAATAGTCGAGAGACTCAACAAAGCAACTCCCTATAGTCTGAAATTT
2558307 ATTTTATAACTTTTAATA
1 ATTTTATAACTTTTAATA
2558325 ATCAAGTACT
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
58 45 0.70
59 4 0.06
60 15 0.23
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (60 bp):
ATTTTATAACTTTTAATAGTCGAGAGACTCAACAAAGCAACTCCCTATAGTCTGAAATTT
Found at i:2569336 original size:63 final size:63
Alignment explanation
Indices: 2569237--2569362 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
2569227 AATCTATCAT
2569237 CAGGCTTTAGCTGATGCTATTGCTTTGTAGTTTGAGGTCTGGGCCTGGAGCATGAGGTTTGGG
1 CAGGCTTTAGCTGATGCTATTGCTTTGTAGTTTGAGGTCTGGGCCTGGAGCATGAGGTTTGGG
2569300 CAGGCTTTAGCTGATGCTATTGCTTTGTAGTTTGAGGTCTGGGCCTGGAGCATGAGGTTTGGG
1 CAGGCTTTAGCTGATGCTATTGCTTTGTAGTTTGAGGTCTGGGCCTGGAGCATGAGGTTTGGG
2569363 TTTTGATAGT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.14, C:0.14, G:0.37, T:0.35
Consensus pattern (63 bp):
CAGGCTTTAGCTGATGCTATTGCTTTGTAGTTTGAGGTCTGGGCCTGGAGCATGAGGTTTGGG
Found at i:2569908 original size:24 final size:23
Alignment explanation
Indices: 2569870--2569922 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
2569860 CGTCGTCTTT
2569870 CGACCACATCCACCGCCGCACTC
1 CGACCACATCCACCGCCGCACTC
* * *
2569893 CGACCACCGTCCACCGTCGTACTC
1 CGACCA-CATCCACCGCCGCACTC
2569917 CGACCA
1 CGACCA
2569923 TCTTTTGACG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.21, C:0.53, G:0.15, T:0.11
Consensus pattern (23 bp):
CGACCACATCCACCGCCGCACTC
Found at i:2572203 original size:30 final size:30
Alignment explanation
Indices: 2572162--2572226 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
2572152 TCCGTCTTGG
*
2572162 CCTCTGATCTTCTTTC-ACTCTTCAGTATGA
1 CCTCCGATCTTCTTTCTA-TCTTCAGTATGA
* *
2572192 CCTCCGATCTTCTTTCTATCTTCCGTATGG
1 CCTCCGATCTTCTTTCTATCTTCAGTATGA
2572222 CCTCC
1 CCTCC
2572227 CCTTGGTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.12, C:0.35, G:0.11, T:0.42
Consensus pattern (30 bp):
CCTCCGATCTTCTTTCTATCTTCAGTATGA
Found at i:2572292 original size:324 final size:315
Alignment explanation
Indices: 2571870--2572485 Score: 953
Period size: 324 Copynumber: 1.9 Consensus size: 315
2571860 CCTCCGATTA
* *
2571870 TCCGATCTTCTTTCTCTCTCCCGTATGGCCTCCCCTTGGTACTATTTCTTCTCTTTGATTTATGA
1 TCCGATCTTCTTTCTATCTCCCGTATGGCCTCCCCTTGGTACTATTTCTTCCCTTTGATTTATGA
* * *
2571935 TGAATTTTAGTGTAGTGGGTGTCTTTTGCTTCTTTTTTATAATTAAGTAATAATTATTTATTTTT
66 TAAATTTTAGTGTAGTGGGTGTCTTTCGCTTCTTTTATATAATTAAGTAATAATTATTTATTTTT
2572000 AATTTATTTTTATCTTTTTTACTTATTTAATTATACATACATATATAATTTTATATTTTATGTTG
131 -ATTTA-TTTTATCTTTTTTACTTATTTAATTATACATACATATATAA-TTT-TA---TAT-TT-
* * * * * **
2572065 TTTAATATTTATGCCACCGTGCTGCCACCGCGCCGTCGCGTCGTCGCTATTACCGGTGGCCGATG
187 TTTAATATTTATGCCACCGTGCTGCCACCGCACCGCCGCATCGCCGATACCACCGGTGGCCGATG
* *
2572130 GTTACCAAATTTCATCGGAAAATCCGTCTTGGCCTCTGATCTTCTTTCACTCTTCAGTATGACC
252 GTTACCAAATTTCACCGGAAAATCCGTCTTGGCCTCCGATCTTCTTTCACTCTTCAGTATGACC
*
2572194 TCCGATCTTCTTTCTATCTTCCGTATGGCCTCCCCTTGGTACTATTTCTTCCCTTTGATTTATGA
1 TCCGATCTTCTTTCTATCTCCCGTATGGCCTCCCCTTGGTACTATTTCTTCCCTTTGATTTATGA
2572259 TAAATTTTAGTGTAGTGGGTGTCTTTCGCTTCTTTTATATAATTAAGTAATAATTATTTATTTTT
66 TAAATTTTAGTGTAGTGGGTGTCTTTCGCTTCTTTTATATAATTAAGTAATAATTATTTATTTTT
* *
2572324 ATTTATTTTATCTTTTTTACTTATTTAATTTTATATACATATATAATTTTATATTTTTTAATATT
131 ATTTATTTTATCTTTTTTACTTATTTAATTATACATACATATATAATTTTATATTTTTTAATATT
* *
2572389 TATGCCACCGTGCTGCCACCGCACCGCCGCATCGCCGATGCCACCGGTGGTCGATGGTTACCAAA
196 TATGCCACCGTGCTGCCACCGCACCGCCGCATCGCCGATACCACCGGTGGCCGATGGTTACCAAA
* * *
2572454 TTTCACCGGGAATTCCTTCTTGGCCTCCGATC
261 TTTCACCGGAAAATCCGTCTTGGCCTCCGATC
2572486 GTCCGATCTT
Statistics
Matches: 270, Mismatches: 22, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
315 92 0.34
316 2 0.01
317 3 0.01
320 2 0.01
321 3 0.01
322 39 0.14
323 5 0.02
324 124 0.46
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (315 bp):
TCCGATCTTCTTTCTATCTCCCGTATGGCCTCCCCTTGGTACTATTTCTTCCCTTTGATTTATGA
TAAATTTTAGTGTAGTGGGTGTCTTTCGCTTCTTTTATATAATTAAGTAATAATTATTTATTTTT
ATTTATTTTATCTTTTTTACTTATTTAATTATACATACATATATAATTTTATATTTTTTAATATT
TATGCCACCGTGCTGCCACCGCACCGCCGCATCGCCGATACCACCGGTGGCCGATGGTTACCAAA
TTTCACCGGAAAATCCGTCTTGGCCTCCGATCTTCTTTCACTCTTCAGTATGACC
Found at i:2572986 original size:19 final size:19
Alignment explanation
Indices: 2572962--2573002 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
2572952 CGGGTATTGC
* *
2572962 TAAACCTATCAAGATTTAA
1 TAAACCTACCAAGATTGAA
2572981 TAAACCTACCAAGATTGAA
1 TAAACCTACCAAGATTGAA
2573000 TAA
1 TAA
2573003 TATATTTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.17, G:0.07, T:0.27
Consensus pattern (19 bp):
TAAACCTACCAAGATTGAA
Found at i:2573082 original size:33 final size:33
Alignment explanation
Indices: 2573040--2573103 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
2573030 AAACAATCAT
*
2573040 CTACTAAAAACCCACTACCCATTAAATAAATAC
1 CTACAAAAAACCCACTACCCATTAAATAAATAC
* *
2573073 CTACAAAAAATCCACTACCTATTAAATAAAT
1 CTACAAAAAACCCACTACCCATTAAATAAAT
2573104 CACCCAGTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (33 bp):
CTACAAAAAACCCACTACCCATTAAATAAATAC
Found at i:2574037 original size:19 final size:19
Alignment explanation
Indices: 2573998--2574037 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2573988 CTTAAGGGTA
* *
2573998 TTACTAAACCTACTAAGAT
1 TTACTAAACCTACCAAAAT
2574017 TTACTAAACCTACCAAAAT
1 TTACTAAACCTACCAAAAT
2574036 TT
1 TT
2574038 GAATAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.23, G:0.03, T:0.33
Consensus pattern (19 bp):
TTACTAAACCTACCAAAAT
Found at i:2575398 original size:292 final size:281
Alignment explanation
Indices: 2574646--2575450 Score: 938
Period size: 276 Copynumber: 2.8 Consensus size: 281
2574636 AATTAAGTAA
* *
2574646 TAATTTTTTTTTATTTTTTTACTTATTTAATTATACATACATATATAATTTTATATTATAT-TTG
1 TAATTTATTTTTATTTTTTTACTTATTTAATTATACATACATATATAATTTTATATTTTATGTTG
2574710 TTTAATATTTATG----C---C-G--CCGCGTCGCCGCTGCCACTGGTGGCCGTTGGTTACCAAA
66 TTTAATATTTATGCCACCGTGCTGCACCGCGTCGCCGCTG-CAC-GGTGG--G-TGG-TACCAAA
* * * *
2574765 TTTCACCGGGAAGTCCGTCTTAGCCTCCGATCGTCCGATCTTCTTTCTCT-CCCGTATGACCTCC
125 TTTCACCGGGAAGTTCGTCTTAGCATCTGATCGTCCGATCTTCTTTCTCTCCCCGTATGGCCTCC
*
2574829 CCTTGGCACTACTTCTTCCCCTTGATTTATGATGAATTTTAGTGTAGTGGGTGTCTTTTGCTTAT
190 CCTTGG---TACTTCTTCCCCTTGATTTATGAT-AATTTTAGTGTAGTGGGTGTCTTTTACTTAT
2574894 TTTTTATAATTAAGTAATAATTATTTATTTT
251 TTTTTATAATTAAGTAATAATTATTTATTTT
* * *
2574925 TAATTTATTTTTATCTTTTTTACTTTTTTACTTATATATACATATATAATTTTATATTTTATGTT
1 TAATTTATTTTTAT-TTTTTTACTTATTTAATTATACATACATATATAATTTTATATTTTATGTT
* * *
2574990 GTTTAATATTTATACCACCGTGTTGCTATCGCGTCG-C-C-G-A---T-GGT--TACCAAATTTC
65 GTTTAATATTTATGCCACCGTGCTGC-ACCGCGTCGCCGCTGCACGGTGGGTGGTACCAAATTTC
* * *
2575045 ACCGGGAAGTTCGT-TTTG-ATCTCCGATCGTCCGATCTTCTTTCTCTCTCCCGTGTGGCCTCCT
129 ACCGGGAAGTTCGTCTTAGCATCT--GATCGTCCGATCTTCTTTCTCTC-CCCGTATGGCCTCCC
* *
2575108 CTTGGTACTACTTCCCCTTGATTTATGATAAATTTTAGTGTAGTGGGTGTCTTTTACTTCTTTTT
191 CTTGGTACTTCTTCCCCTTGATTTATGAT-AATTTTAGTGTAGTGGGTGTCTTTTAC-T-TATTT
2575173 TTTATAATTAAGTAATAATTATTTATTTT
253 TTTATAATTAAGTAATAATTATTTATTTT
* *
2575202 TAATTTATTTTTATTTTTTTACTTATTTAATTATACATGCATATATAATTTTATATTTTGTGTTG
1 TAATTTATTTTTATTTTTTTACTTATTTAATTATACATACATATATAATTTTATATTTTATGTTG
*
2575267 TTTAATATTTATGCCACCGTGCTGCCACCGCGCCGCCGCTGCTACCGGTGGATGATGGATACCAA
66 TTTAATATTTATGCCACCGTGCTG-CACCGCGTCGCCGCTGC-A-CGGTGG--G-TGG-TACCAA
* ** * * *
2575332 ATTTTACCGAAAAGTTCATCTTGGCATCTGATCGTTCGATCTTCTTTCTCTCCCCCGTATGGCCT
124 ATTTCACCGGGAAGTTCGTCTTAGCATCTGATCGTCCGATCTTCTTTCTCT-CCCCGTATGGCCT
2575397 CCCCTTGGTATGTCTTCTTCCCCTTGATTTATGATAATTTTAGTGTAGTGGGTG
188 CCCCTTGGTA---CTTCTTCCCCTTGATTTATGATAATTTTAGTGTAGTGGGTG
2575451 ATTTATTTAA
Statistics
Matches: 447, Mismatches: 37, Indels: 69
0.81 0.07 0.12
Matches are distributed among these distances:
274 2 0.00
275 52 0.12
276 122 0.27
277 49 0.11
278 18 0.04
279 15 0.03
280 44 0.10
281 16 0.04
282 1 0.00
283 1 0.00
285 2 0.00
286 1 0.00
287 1 0.00
288 1 0.00
289 3 0.01
290 1 0.00
291 1 0.00
292 69 0.15
293 4 0.01
294 23 0.05
295 21 0.05
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (281 bp):
TAATTTATTTTTATTTTTTTACTTATTTAATTATACATACATATATAATTTTATATTTTATGTTG
TTTAATATTTATGCCACCGTGCTGCACCGCGTCGCCGCTGCACGGTGGGTGGTACCAAATTTCAC
CGGGAAGTTCGTCTTAGCATCTGATCGTCCGATCTTCTTTCTCTCCCCGTATGGCCTCCCCTTGG
TACTTCTTCCCCTTGATTTATGATAATTTTAGTGTAGTGGGTGTCTTTTACTTATTTTTTATAAT
TAAGTAATAATTATTTATTTT
Found at i:2578508 original size:2 final size:2
Alignment explanation
Indices: 2578501--2578553 Score: 56
Period size: 2 Copynumber: 27.5 Consensus size: 2
2578491 TCAGGCCGGG
* * * *
2578501 TA TA TA TA TA TA TT TA AA T- TA AA TA TA TA AA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2578541 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
2578554 TTAATTTAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2578567 original size:45 final size:44
Alignment explanation
Indices: 2578501--2578591 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 44
2578491 TCAGGCCGGG
2578501 TATATATATATATTTAAATTAAATATATAAATATTATATATATA
1 TATATATATATATTTAAATTAAATATATAAATATTATATATATA
* * *
2578545 TATATATATTTAATTTAAATTAAATTTATTAATATTATATATATA
1 TATATATATAT-ATTTAAATTAAATATATAAATATTATATATATA
2578590 TA
1 TA
2578592 ATAATTATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
44 10 0.23
45 33 0.77
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (44 bp):
TATATATATATATTTAAATTAAATATATAAATATTATATATATA
Found at i:2582348 original size:21 final size:20
Alignment explanation
Indices: 2582318--2582414 Score: 77
Period size: 20 Copynumber: 4.8 Consensus size: 20
2582308 GATTCTGACT
* *
2582318 ATCGCATTGCGATTTCCCAA
1 ATCGCGTTGCGATTACCCAA
**
2582338 ATTCGCGTTGCGATTACTTAA
1 A-TCGCGTTGCGATTACCCAA
**
2582359 ATCGCGTTGCGATTACTTAA
1 ATCGCGTTGCGATTACCCAA
** **
2582379 ATCGCAATGCGATTACTTAA
1 ATCGCGTTGCGATTACCCAA
**
2582399 ATCGCAATGCGATTAC
1 ATCGCGTTGCGATTAC
2582415 TTAAATCGCA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
20 54 0.77
21 16 0.23
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (20 bp):
ATCGCGTTGCGATTACCCAA
Found at i:2582365 original size:20 final size:20
Alignment explanation
Indices: 2582346--2582655 Score: 232
Period size: 20 Copynumber: 15.3 Consensus size: 20
2582336 AAATTCGCGT
**
2582346 TGCGATTACTTAAATCGCGT
1 TGCGATTACTTAAATCGCAA
2582366 TGCGATTACTTAAATCGCAA
1 TGCGATTACTTAAATCGCAA
2582386 TGCGATTACTTAAATCGCAA
1 TGCGATTACTTAAATCGCAA
2582406 TGCGATTACTTAAATCGCAA
1 TGCGATTACTTAAATCGCAA
***
2582426 TGCGAATTAGGAAAATCGCAA
1 TGCG-ATTACTTAAATCGCAA
* *
2582447 TGCGAATACGTAAATCGCAA
1 TGCGATTACTTAAATCGCAA
* * *
2582467 TGCGATTACGT-ATTCGCAT
1 TGCGATTACTTAAATCGCAA
** *
2582486 TGCGATTTTTCTAATTCG-AA
1 TGCGATTACT-TAAATCGCAA
* * **
2582506 TTGCGATTTACGT-ATTCGCGT
1 -TGCGA-TTACTTAAATCGCAA
* * *
2582527 TGCGATTTTCATAATTCGCAA
1 TGCGA-TTACTTAAATCGCAA
* *
2582548 TGCGAATACGTAAATCGCAA
1 TGCGATTACTTAAATCGCAA
* **
2582568 CGCGATTAAGTAAATCGCAA
1 TGCGATTACTTAAATCGCAA
***
2582588 TGCGAATTAGGAAAATCGCAA
1 TGCG-ATTACTTAAATCGCAA
* *
2582609 TGCGAATACGTAAATCGCAA
1 TGCGATTACTTAAATCGCAA
* * *
2582629 TGCGAAT-CTGACTATCGCAA
1 TGCGATTACTTA-AATCGCAA
2582649 TGCGATT
1 TGCGATT
2582656 TACATAGCGC
Statistics
Matches: 240, Mismatches: 41, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
19 15 0.06
20 166 0.69
21 57 0.24
22 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (20 bp):
TGCGATTACTTAAATCGCAA
Found at i:2582444 original size:61 final size:61
Alignment explanation
Indices: 2582346--2582633 Score: 266
Period size: 61 Copynumber: 4.8 Consensus size: 61
2582336 AAATTCGCGT
* ** * *
2582346 TGCGATTACTTAAATCGCGTTGCG-ATTACTTAAATCGCAATGCGATTACTTAAATCGCAA
1 TGCGATTACGTAAATCGCAATGCGAATTACGTAAATCGCAATGCGATTACGTAAATCGCAA
* * * *
2582406 TGCGATTACTTAAATCGCAATGCGAATTAGGAAAATCGCAATGCGAATACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAATGCGAATTACGTAAATCGCAATGCGATTACGTAAATCGCAA
* * * * * * **
2582467 TGCGATTACGT-ATTCGCATTGCGATTTTTC-TAATTCG-AATTGCGATTTACGT-ATTCGCGT
1 TGCGATTACGTAAATCGCAATGCGA-ATTACGTAAATCGCAA-TGCGA-TTACGTAAATCGCAA
* * * * *
2582527 TGCGATTTTCATAATTCGCAATGCGAA-TACGTAAATCGCAACGCGATTAAGTAAATCGCAA
1 TGCGA-TTACGTAAATCGCAATGCGAATTACGTAAATCGCAATGCGATTACGTAAATCGCAA
* *
2582588 TGCGAATTAGGAAAATCGCAATGCGAA-TACGTAAATCGCAATGCGA
1 TGCG-ATTACGTAAATCGCAATGCGAATTACGTAAATCGCAATGCGA
2582634 ATCTGACTAT
Statistics
Matches: 182, Mismatches: 36, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
59 2 0.01
60 60 0.33
61 105 0.58
62 15 0.08
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (61 bp):
TGCGATTACGTAAATCGCAATGCGAATTACGTAAATCGCAATGCGATTACGTAAATCGCAA
Found at i:2582461 original size:41 final size:40
Alignment explanation
Indices: 2582357--2582635 Score: 235
Period size: 41 Copynumber: 6.9 Consensus size: 40
2582347 GCGATTACTT
** * *
2582357 AAATCGCGTTGCGATTACTTAAATCGCAATGCG-ATTACTT
1 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAC-G
* *
2582397 AAATCGCAATGCGATTACTTAAATCGCAATGCGAATTAGG
1 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTACG
*
2582437 AAAATCGCAATGCGAATACGTAAATCGCAATGCG-ATTACG
1 -AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTACG
* * * * * *
2582477 TATTCGCATTGCGATTTTTC-TAATTCG-AATTGCGATTTACG
1 AAATCGCAATGCGA--TTACGTAAATCGCAA-TGCGAATTACG
* * ** * * *
2582518 TATTCGCGTTGCGATTTTCATAATTCGCAATGCGAA-TACG
1 AAATCGCAATGCGA-TTACGTAAATCGCAATGCGAATTACG
* * *
2582558 TAAATCGCAACGCGATTAAGTAAATCGCAATGCGAATTAGG
1 -AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTACG
*
2582599 AAAATCGCAATGCGAATACGTAAATCGCAATGCGAAT
1 -AAATCGCAATGCGATTACGTAAATCGCAATGCGAAT
2582636 CTGACTATCG
Statistics
Matches: 199, Mismatches: 30, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
39 13 0.07
40 72 0.36
41 112 0.56
42 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (40 bp):
AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTACG
Found at i:2583241 original size:19 final size:19
Alignment explanation
Indices: 2583217--2583261 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
2583207 GCAACGAGAG
**
2583217 AATCGCAACACGAAATGAA
1 AATCGCAACACGAAACCAA
*
2583236 AATCGCAACGCGAAACCAA
1 AATCGCAACACGAAACCAA
2583255 AATCGCA
1 AATCGCA
2583262 TTGCGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.49, C:0.27, G:0.16, T:0.09
Consensus pattern (19 bp):
AATCGCAACACGAAACCAA
Found at i:2583279 original size:19 final size:19
Alignment explanation
Indices: 2583257--2583422 Score: 154
Period size: 20 Copynumber: 9.1 Consensus size: 19
2583247 GAAACCAAAA
*
2583257 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2583276 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
2583290 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2583309 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
2583323 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
2583342 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
2583361 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
*
2583381 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
*
2583401 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
2583421 TC
1 TC
2583423 AACCAAAAGA
Statistics
Matches: 126, Mismatches: 9, Indels: 24
0.79 0.06 0.15
Matches are distributed among these distances:
14 20 0.16
16 5 0.04
17 6 0.05
19 41 0.33
20 53 0.42
21 1 0.01
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2583298 original size:14 final size:14
Alignment explanation
Indices: 2583279--2583334 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
2583269 TTTCATTTCG
2583279 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2583293 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2583312 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2583326 CGTTGCGAT
1 CGTTGCGAT
2583335 AGTCATTTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2583304 original size:33 final size:34
Alignment explanation
Indices: 2583262--2583422 Score: 173
Period size: 33 Copynumber: 4.5 Consensus size: 34
2583252 CAAAATCGCA
2583262 TTGCGATTTTCATTTCGCGTTGCGATTC-TCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTTCTCG
2583295 TTGCGATTTTCATTTCGCGTTGCGATTC-TCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTTCTCG
** *
2583328 TTGCGATAGTCATTTCGCGTTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTTCGCGTTGCGAT--TC--TT-CTCG
*
2583367 TTGCGATTTTCATTATCTCGTTGCGATTTTCATTATCTCG
1 TTGCGATTTTCATT-TCGCGTTGCGA--TTC--T-TCTCG
2583407 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
2583423 AACCAAAAGA
Statistics
Matches: 111, Mismatches: 7, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
33 57 0.51
35 2 0.02
38 1 0.01
39 17 0.15
40 32 0.29
41 1 0.01
42 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.45
Consensus pattern (34 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTTCTCG
Found at i:2584295 original size:21 final size:21
Alignment explanation
Indices: 2584271--2584337 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2584261 TCATTCCTCG
2584271 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
2584292 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
2584313 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
2584334 AGAG
1 AGAG
2584338 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:2584295 original size:42 final size:42
Alignment explanation
Indices: 2584219--2584337 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
2584209 AACTCGTCTG
* * * * * * *
2584219 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
2584261 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
2584303 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
2584338 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:2585697 original size:14 final size:14
Alignment explanation
Indices: 2585678--2585713 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
2585668 ATTGTTTAAT
2585678 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
2585692 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
2585706 TGATTTGT
1 TGATTTGT
2585714 TTAATTGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.42
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2585842 original size:19 final size:19
Alignment explanation
Indices: 2585820--2585909 Score: 84
Period size: 19 Copynumber: 4.9 Consensus size: 19
2585810 AAAAATGACT
2585820 ATCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATAAAA
* *
2585839 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATAAAA
*
2585853 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATAAAA
*
2585872 ATCGCAACGCGAAACT-AAA
1 ATCGCAATGCGAAA-TAAAA
2585891 ATCGCAATGCGAAACTAAA
1 ATCGCAATGCGAAA-TAAA
2585910 TTCGCGTTGC
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
14 9 0.15
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 41 0.69
20 3 0.05
ACGTcount: A:0.48, C:0.20, G:0.19, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATAAAA
Found at i:2585921 original size:19 final size:19
Alignment explanation
Indices: 2585852--2585914 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
2585842 GCAACGAGAG
2585852 AATCGCAATGCGAAA-TGAA
1 AATCGCAATGCGAAACT-AA
*
2585871 AATCGCAACGCGAAACTAA
1 AATCGCAATGCGAAACTAA
2585890 AATCGCAATGCGAAACTAA
1 AATCGCAATGCGAAACTAA
*
2585909 ATTCGC
1 AATCGC
2585915 GTTGCGATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 39 0.98
20 1 0.03
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAACTAA
Found at i:2585932 original size:19 final size:19
Alignment explanation
Indices: 2585910--2586027 Score: 85
Period size: 19 Copynumber: 6.7 Consensus size: 19
2585900 CGAAACTAAA
2585910 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
2585929 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
2585944 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
2585962 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
2585977 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
2585995 TTCGCATTGCGATAGTCAT
1 TTCGCGTTGCGATTTTCAT
2586014 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
2586028 AGACATTAAG
Statistics
Matches: 74, Mismatches: 14, Indels: 21
0.68 0.13 0.19
Matches are distributed among these distances:
14 17 0.23
16 6 0.08
17 6 0.08
19 35 0.47
20 10 0.14
ACGTcount: A:0.12, C:0.25, G:0.20, T:0.43
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:2585956 original size:33 final size:33
Alignment explanation
Indices: 2585914--2586007 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
2585904 ACTAAATTCG
*
2585914 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
2585947 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
2585980 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
2586008 AGTCATTTCC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:2586026 original size:20 final size:20
Alignment explanation
Indices: 2585980--2586073 Score: 68
Period size: 20 Copynumber: 4.7 Consensus size: 20
2585970 GCGATTCTCT
**
2585980 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATAGTCATTTCCG
*
2585999 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* **
2586019 CGTTGCGATAGACA-TTAAG
1 CGTTGCGATAGTCATTTCCG
*
2586038 ATGATTGCGA-ACGTCATTTCCG
1 -CG-TTGCGATA-GTCATTTCCG
*
2586060 TGTTGCGATAGTCA
1 CGTTGCGATAGTCA
2586074 AATGATTACC
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
19 17 0.29
20 26 0.45
21 12 0.21
22 3 0.05
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:2588554 original size:24 final size:24
Alignment explanation
Indices: 2588520--2588573 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2588510 CTGAAACATC
*
2588520 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
2588544 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
2588568 ATCAAA
1 ATCAAA
2588574 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:2589401 original size:20 final size:20
Alignment explanation
Indices: 2589315--2589409 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
2589305 GATTCTGTAT
*
2589315 TATCTCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
2589335 AATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * ** * *
2589355 AATCGCATTGCGATTTTGAAT
1 TATCGCGTTGCGATAGT-CAG
2589376 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
2589396 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
2589410 TTTCCAAATT
Statistics
Matches: 58, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
20 44 0.76
21 14 0.24
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:2589407 original size:61 final size:61
Alignment explanation
Indices: 2589294--2589408 Score: 176
Period size: 61 Copynumber: 1.9 Consensus size: 61
2589284 GAACTTTGAA
* * * *
2589294 AATCGCATTGCGATTCTGTATTATCTCGTTGCGATAGTCAGAATCTCGTTGCGAAAGTCAG
1 AATCGCATTGCGATTCTGAATTATCGCGTTGCGATAGTCAGAATCGCATTGCGAAAGTCAG
* *
2589355 AATCGCATTGCGATTTTGAATTATCGCGTTGCGATAGTCAGTATCGCATTGCGA
1 AATCGCATTGCGATTCTGAATTATCGCGTTGCGATAGTCAGAATCGCATTGCGA
2589409 TTTTCCAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (61 bp):
AATCGCATTGCGATTCTGAATTATCGCGTTGCGATAGTCAGAATCGCATTGCGAAAGTCAG
Found at i:2589428 original size:41 final size:41
Alignment explanation
Indices: 2589342--2589430 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 41
2589332 CAGAATCTCG
* * *
2589342 TTGCGAAAGTCAGAATCGCATTGCGATTTTGAATTATCGCG
1 TTGCGATAGTCAGAATCGCATTGCGATTTTAAATTATCGCA
*
2589383 TTGCGATAGTCAGTATCGCATTGCGATTTTCCAAATT-T-GCA
1 TTGCGATAGTCAGAATCGCATTGCGATTTT--AAATTATCGCA
2589424 TTGCGAT
1 TTGCGAT
2589431 TTACTTATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 37 0.88
42 1 0.02
43 4 0.10
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (41 bp):
TTGCGATAGTCAGAATCGCATTGCGATTTTAAATTATCGCA
Found at i:2589446 original size:20 final size:21
Alignment explanation
Indices: 2589398--2589449 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
2589388 ATAGTCAGTA
*
2589398 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
* **
2589419 TTGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
2589439 TCGCATTGCGA
1 TCGCATTGCGA
2589450 ATTGGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:2589491 original size:21 final size:22
Alignment explanation
Indices: 2589439--2589491 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
2589429 ATTTACTTAT
2589439 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
2589460 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
2589481 TCGCATTGCGA
1 TCGCATTGCGA
2589492 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:2600419 original size:20 final size:20
Alignment explanation
Indices: 2600393--2600459 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
2600383 CACGGAATGT
2600393 AAGATTATCAGTGAGAATAA
1 AAGATTATCAGTGAGAATAA
* *
2600413 AATATTA-CTAGTGATAATAA
1 AAGATTATC-AGTGAGAATAA
*
2600433 AAGATTATCAGTGGGAATAA
1 AAGATTATCAGTGAGAATAA
2600453 AAGATTA
1 AAGATTA
2600460 CCAGAGAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.03
20 38 0.95
21 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.28
Consensus pattern (20 bp):
AAGATTATCAGTGAGAATAA
Found at i:2605446 original size:41 final size:41
Alignment explanation
Indices: 2605401--2605483 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
2605391 ATAGACAGAA
*
2605401 ACACTTTGGGATGAACAAAGGAAATCGAGGGAGGAAGCCCT
1 ACACTTTGGGATGAACAAAGGAAATCGAGAGAGGAAGCCCT
*
2605442 ACACTTTGGGATGAACAAAGGAAATTGAGAGAGGAAGCCCT
1 ACACTTTGGGATGAACAAAGGAAATCGAGAGAGGAAGCCCT
2605483 A
1 A
2605484 GGGGATGGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.39, C:0.16, G:0.30, T:0.16
Consensus pattern (41 bp):
ACACTTTGGGATGAACAAAGGAAATCGAGAGAGGAAGCCCT
Found at i:2620247 original size:36 final size:36
Alignment explanation
Indices: 2620197--2620345 Score: 157
Period size: 36 Copynumber: 4.2 Consensus size: 36
2620187 CAAAATCATC
*
2620197 ATTTCCAATACTAGTGGAAAAACCTAATTTGAGCAT
1 ATTTCCAATGCTAGTGGAAAAACCTAATTTGAGCAT
2620233 ATTTCCAATGCTAGTGGAAAAACCTAATTTGAGCAT
1 ATTTCCAATGCTAGTGGAAAAACCTAATTTGAGCAT
* **
2620269 TTTTCCAA-G-TA---GAAATTCCTAATTTGAGCAT
1 ATTTCCAATGCTAGTGGAAAAACCTAATTTGAGCAT
* * * **
2620300 TTTTCCAATATTCAAGTATAAAAACCTAATTTGAGCAT
1 ATTTCC-A-ATGCTAGTGGAAAAACCTAATTTGAGCAT
2620338 -TTTCCAAT
1 ATTTCCAAT
2620346 ATTCTAGTGA
Statistics
Matches: 97, Mismatches: 9, Indels: 15
0.80 0.07 0.12
Matches are distributed among these distances:
31 24 0.25
32 1 0.01
33 1 0.01
34 2 0.02
35 4 0.04
36 43 0.44
37 5 0.05
38 17 0.18
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (36 bp):
ATTTCCAATGCTAGTGGAAAAACCTAATTTGAGCAT
Found at i:2620340 original size:69 final size:66
Alignment explanation
Indices: 2620219--2620344 Score: 180
Period size: 69 Copynumber: 1.9 Consensus size: 66
2620209 AGTGGAAAAA
* *
2620219 CCTAATTTGAGCATATTTCCAATGCTAGTGGAAAAACCTAATTTGAGCATTTTTCCAAGTAGAAA
1 CCTAATTTGAGCATATTTCCAATGCAAGTAGAAAAACCTAATTTGAGCA-TTTTCCAAGTAGAAA
2620284 TT
65 TT
* * *
2620286 CCTAATTTGAGCATTTTTCCAATATTCAAGTATAAAAACCTAATTTGAGCATTTTCCAA
1 CCTAATTTGAGCATATTTCC-A-ATGCAAGTAGAAAAACCTAATTTGAGCATTTTCCAA
2620345 TATTCTAGTG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
67 19 0.37
68 9 0.17
69 24 0.46
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (66 bp):
CCTAATTTGAGCATATTTCCAATGCAAGTAGAAAAACCTAATTTGAGCATTTTCCAAGTAGAAAT
T
Found at i:2620893 original size:31 final size:31
Alignment explanation
Indices: 2620858--2620920 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
2620848 AATTCGGTGA
*
2620858 ATTCAATATGTCCTTTTCACTAGGAACTCCC
1 ATTCAATATGTCCTTCTCACTAGGAACTCCC
2620889 ATTCAATATGTCCTTCTCACTAGGAACTCCC
1 ATTCAATATGTCCTTCTCACTAGGAACTCCC
2620920 A
1 A
2620921 AACTCTTGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (31 bp):
ATTCAATATGTCCTTCTCACTAGGAACTCCC
Found at i:2622328 original size:64 final size:64
Alignment explanation
Indices: 2622190--2622352 Score: 179
Period size: 64 Copynumber: 2.5 Consensus size: 64
2622180 ATTGTTCAAG
* * * * *
2622190 GTGTATCGATGCACATG-AGGTGTATCGATGCACTCCTTTAAAATAAAAACATCGAATGTCATTA
1 GTGTATCGATGCACAAGTA-GTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGGCATTA
* * *
2622254 GTATATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATACAAACATCGAATGGGATTTA
1 GTGTATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGGCA-TTA
* * *
2622319 -TGTACCGATGCA-TAGATTGTGCATCGATGCACCC
1 GTGTATCGATGCACAAG-TAGTGCATCGATGCACCC
2622353 GTCAAGGGAT
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
63 2 0.02
64 78 0.93
65 4 0.05
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (64 bp):
GTGTATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGGCATTA
Found at i:2622946 original size:18 final size:18
Alignment explanation
Indices: 2622923--2622996 Score: 85
Period size: 18 Copynumber: 4.0 Consensus size: 18
2622913 GAGGGATTAT
2622923 CAGTGGTCCTTCGGGACA
1 CAGTGGTCCTTCGGGACA
* * *
2622941 CAGTGGTTCTTCGGAATAA
1 CAGTGGTCCTTCGGGA-CA
*
2622960 TAAGTGGTCCTTCGGGACA
1 -CAGTGGTCCTTCGGGACA
*
2622979 TAGTGGTCCTTCGGGACA
1 CAGTGGTCCTTCGGGACA
2622997 AATATTCAGT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
18 31 0.67
19 2 0.04
20 13 0.28
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (18 bp):
CAGTGGTCCTTCGGGACA
Found at i:2624891 original size:12 final size:12
Alignment explanation
Indices: 2624870--2624902 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
2624860 GGCTATCCAG
2624870 AGAGGAAGAGGT
1 AGAGGAAGAGGT
*
2624882 AGAGGTAGAGGT
1 AGAGGAAGAGGT
2624894 AGAGGAAGA
1 AGAGGAAGA
2624903 AGTCAGTCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.48, T:0.09
Consensus pattern (12 bp):
AGAGGAAGAGGT
Found at i:2628625 original size:8 final size:8
Alignment explanation
Indices: 2628612--2628637 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2628602 AAGGTTCCAG
2628612 TTCTCTTC
1 TTCTCTTC
2628620 TTCTCTTC
1 TTCTCTTC
2628628 TTCTCTTC
1 TTCTCTTC
2628636 TT
1 TT
2628638 TTCTCCCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (8 bp):
TTCTCTTC
Found at i:2629235 original size:64 final size:64
Alignment explanation
Indices: 2629167--2629288 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 64
2629157 ATTGTTCAAG
* * * * *
2629167 GTGTATCGATGCATATG-AGGTGTATCGATGCACTCCTTTAAAATAAAAACATCGAATGTCATTA
1 GTGTATCGATGCACAAGTA-GTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGTCATTA
*
2629231 GTGTATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATACAAACATCGAATG
1 GTGTATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATG
2629289 GGATTTATGT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
64 50 0.98
65 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (64 bp):
GTGTATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGTCATTA
Found at i:2629306 original size:64 final size:64
Alignment explanation
Indices: 2629167--2629329 Score: 172
Period size: 64 Copynumber: 2.5 Consensus size: 64
2629157 ATTGTTCAAG
* * * * * *
2629167 GTGTATCGATGCATATGA-GGTGTATCGATGCACTCCTTTAAAATAAAAACATCGAATGTCATTA
1 GTGTATCGATGCA-AAGATAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGGCATTA
* *
2629231 GTGTATCGATGCACAAG-TAGTGCATCGATGCACCCCCTTAAAATACAAACATCGAATGGGATTT
1 GTGTATCGATGCA-AAGATAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGGCA-TT
2629295 A
64 A
* *
2629296 -TGTA-CTGATGCATAGATTGTGCATCGATGCACCC
1 GTGTATC-GATGCAAAGATAGTGCATCGATGCACCC
2629330 GTCAAGGGAT
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
63 3 0.04
64 78 0.93
65 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (64 bp):
GTGTATCGATGCAAAGATAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGGCATTA
Found at i:2632274 original size:35 final size:36
Alignment explanation
Indices: 2632192--2632344 Score: 236
Period size: 36 Copynumber: 4.2 Consensus size: 36
2632182 AAAATCGTCA
* *
2632192 TTTCCAATACTAGTGGAAAAACCTAATTTGAGCATA
1 TTTCCAATGCTAGTGGAAAAACCTAATTTGAGCATT
2632228 TTTCCAATGCTAGTGGAAAAACCTAATTTGAGCA-T
1 TTTCCAATGCTAGTGGAAAAACCTAATTTGAGCATT
*
2632263 TTTCCAATGCTAGTGGAAATACCTAATTTGAGCATT
1 TTTCCAATGCTAGTGGAAAAACCTAATTTGAGCATT
* *
2632299 TTTCCAATATTCAAGTGGAAAAACCTAATTTGAGCATT
1 TTTCC-A-ATGCTAGTGGAAAAACCTAATTTGAGCATT
2632337 TTTCCAAT
1 TTTCCAAT
2632345 ATTCAAGTGA
Statistics
Matches: 108, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
35 33 0.31
36 41 0.38
37 2 0.02
38 32 0.30
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (36 bp):
TTTCCAATGCTAGTGGAAAAACCTAATTTGAGCATT
Found at i:2632277 original size:71 final size:74
Alignment explanation
Indices: 2632192--2632345 Score: 242
Period size: 71 Copynumber: 2.1 Consensus size: 74
2632182 AAAATCGTCA
*
2632192 TTTCCAATACTAGTGGAAAAACCTAATTTGAGCATATTTCC-A-ATGCTAGTGGAAAAACCTAAT
1 TTTCCAATACTAGTGGAAAAACCTAATTTGAGCATATTTCCAATATGCAAGTGGAAAAACCTAAT
2632255 TTGAGCA-T
66 TTGAGCATT
* * * *
2632263 TTTCCAATGCTAGTGGAAATACCTAATTTGAGCATTTTTCCAATATTCAAGTGGAAAAACCTAAT
1 TTTCCAATACTAGTGGAAAAACCTAATTTGAGCATATTTCCAATATGCAAGTGGAAAAACCTAAT
2632328 TTGAGCATT
66 TTGAGCATT
2632337 TTTCCAATA
1 TTTCCAATA
2632346 TTCAAGTGAG
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 38 0.51
72 1 0.01
73 26 0.35
74 9 0.12
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (74 bp):
TTTCCAATACTAGTGGAAAAACCTAATTTGAGCATATTTCCAATATGCAAGTGGAAAAACCTAAT
TTGAGCATT
Found at i:2635367 original size:3 final size:3
Alignment explanation
Indices: 2635359--2635403 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
2635349 AAATTAATTG
* *
2635359 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAT TAA -AA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2635404 TATTTTAGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2635880 original size:130 final size:133
Alignment explanation
Indices: 2635601--2635943 Score: 410
Period size: 130 Copynumber: 2.6 Consensus size: 133
2635591 TGTCATTTAA
* *
2635601 GGGTGACACGGA-TCCTATGTGATGAGGAGATCTGGTCGGTGGATTACACAGTTCCTACGCGATG
1 GGGTGACAC-GACTCCTATGTGATGAGGAG-TCTGGTCGGTGGATGACACAGTTCCTACGCGATA
* * * *
2635665 AGGATGGTAAGCCATCTTTAGGAAGGGTGATAACACAATTCCTATGCGATAAGGATGACTGGTTA
64 AGGATGATAAGCCATCTTTAGGAAGGATGATAACACAATTCCTACGCGATAAGGACGACTGGTTA
2635730 TCTAG
129 TCTAG
** * * * *
2635735 GGGTTTCACGGCTCCTACGTGATGAGGAGTCTGGTCGGTGGATGACACGGTTCCTACGTGATAAG
1 GGGTGACACGACTCCTATGTGATGAGGAGTCTGGTCGGTGGATGACACAGTTCCTACGCGATAAG
* * *
2635800 GATGAT-AGACTATCTTTA-G-A-GATGATAACACAATTCCTACGTGATGAGGACGACTGGTTAT
66 GATGATAAG-CCATCTTTAGGAAGGATGATAACACAATTCCTACGCGATAAGGACGACTGGTTAT
2635861 CTAG
130 CTAG
* * * *
2635865 GGGTGACACGACTCCTATGTAATGAGGATGCCTTGTCAAG-GGATGACACAGTTCCTACGCGATA
1 GGGTGACACGACTCCTATGTGATGAGGA-GTCTGGTC-GGTGGATGACACAGTTCCTACGCGATA
* *
2635929 AGGATGGTAGGCCAT
64 AGGATGATAAGCCAT
2635944 TTATAGGGAT
Statistics
Matches: 176, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
130 63 0.36
131 39 0.22
132 5 0.03
133 46 0.26
134 23 0.13
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (133 bp):
GGGTGACACGACTCCTATGTGATGAGGAGTCTGGTCGGTGGATGACACAGTTCCTACGCGATAAG
GATGATAAGCCATCTTTAGGAAGGATGATAACACAATTCCTACGCGATAAGGACGACTGGTTATC
TAG
Found at i:2636088 original size:64 final size:64
Alignment explanation
Indices: 2635957--2636135 Score: 223
Period size: 64 Copynumber: 2.8 Consensus size: 64
2635947 TAGGGATTTA
* * * *
2635957 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACCATCTCACAGATTGGT
1 TTTCAAGAGAAACTGTCTCAAGGGAGA-AAACTT-GTTTCAAGGGAAACAATCTCAAAGATTGGT
2636022 G
64 G
* * * *
2636023 TTTCAAAAGAAACTGTCTCAAGGGAGAAAACTTGTTTCAAGGGAAATAATCTCAAAGGTTTGTG
1 TTTCAAGAGAAACTGTCTCAAGGGAGAAAACTTGTTTCAAGGGAAACAATCTCAAAGATTGGTG
* * **
2636087 TTTCAAGGGAAACCGTCTCAAGGGAGAAAACTTTGTTTTGAGGGAAACA
1 TTTCAAGAGAAACTGTCTCAAGGGAGAAAAC-TTGTTTCAAGGGAAACA
2636136 GACTAAAAGA
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 54 0.55
65 19 0.19
66 25 0.26
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (64 bp):
TTTCAAGAGAAACTGTCTCAAGGGAGAAAACTTGTTTCAAGGGAAACAATCTCAAAGATTGGTG
Found at i:2636336 original size:37 final size:37
Alignment explanation
Indices: 2636290--2636396 Score: 121
Period size: 37 Copynumber: 2.9 Consensus size: 37
2636280 TATTCCGAGG
*
2636290 GAAAATGTCTCAAGTGAGATGAA-ATTTG-TTTTAAGA
1 GAAAATGTCTCAAGTGAGA-CAACATTTGTTTTTAAGA
2636326 GAAAACTGTCTCAAGTGAGACAACATTTGTTTTTAAGA
1 GAAAA-TGTCTCAAGTGAGACAACATTTGTTTTTAAGA
* * *
2636364 -AAAATTGTCTCTAGCGAGACGACACTTTGTTTT
1 GAAAA-TGTCTCAAGTGAGACAACA-TTTGTTTT
2636397 GAGCGAAACA
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
36 7 0.11
37 39 0.63
38 16 0.26
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.34
Consensus pattern (37 bp):
GAAAATGTCTCAAGTGAGACAACATTTGTTTTTAAGA
Found at i:2640433 original size:29 final size:30
Alignment explanation
Indices: 2640390--2640450 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 30
2640380 TGATGAAAAA
2640390 TAACACAAACAAAAGAGAAAAACGAGTTAG
1 TAACACAAACAAAAGAGAAAAACGAGTTAG
*
2640420 TAACACAAA-AAAAGAGAGAAACGAGTTAG
1 TAACACAAACAAAAGAGAAAAACGAGTTAG
2640449 TA
1 TA
2640451 CAAGCAAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.59, C:0.11, G:0.18, T:0.11
Consensus pattern (30 bp):
TAACACAAACAAAAGAGAAAAACGAGTTAG
Found at i:2643564 original size:3 final size:3
Alignment explanation
Indices: 2643556--2643595 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
2643546 AGAAATACTA
*
2643556 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2643596 TTTTTAAGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:2663911 original size:22 final size:24
Alignment explanation
Indices: 2663871--2663914 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
2663861 TTTTCAATCT
2663871 TAATCTTCATTTTTATTCAACATG
1 TAATCTTCATTTTTATTCAACATG
2663895 TAAT-TTCATTTTT-TTCAACA
1 TAATCTTCATTTTTATTCAACA
2663915 CTACTTCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 9 0.45
24 4 0.20
ACGTcount: A:0.30, C:0.16, G:0.02, T:0.52
Consensus pattern (24 bp):
TAATCTTCATTTTTATTCAACATG
Found at i:2664117 original size:273 final size:275
Alignment explanation
Indices: 2663603--2664148 Score: 918
Period size: 273 Copynumber: 2.0 Consensus size: 275
2663593 ACAACTTCTC
* *
2663603 TCATGTTTATTCAACATGTAACTTTATTTTTTTTCAACACTACTTCAAGGGGAGTCAGCTCATCA
1 TCATGTTTATTCAACATGTAACTTTATTTTTTTTCAACACTACTTCAAGGGGAGCCAACTCATCA
2663668 CACCTACATTCCCACACTCTAGGTAAAAGAAAGCATACCTTCCACCCCCGAGCTAGTCAGGTAGA
66 CACCTACATTCCCACACTCTAGGTAAAAGAAAGCATACCTTCCACCCCCGAGCTAGTCAGGTAGA
*
2663733 GTCATCCCATGACTGCTTTCATTCACTCATGTGCTAAGGCTACCATTTATTTAAGGGGGTTTCCA
131 GTCATCCCATGACTGCTTTCATTCACTCATGTGCTAAGGATACCATTTATTTAAGGGGGTTTCCA
** * * *
2663798 GGTAAAGCTGTTGCATTGAGCATTGTCCCTCTACATTTATGCAGA-GGCATTTATTTACAATCAT
196 GGTAAAGCTGTTGCACAGAGCACTATCCCTCTACATTTATGCAGAGGGAATTTATTTACAATCAT
2663862 TTTCAATCTTAATCT
261 TTTCAATCTTAATCT
*
2663877 TCATTTTTATTCAACATGTAA-TTTCA-TTTTTTTCAACACTACTTCAAGGGGAGCCAACTCATC
1 TCATGTTTATTCAACATGTAACTTT-ATTTTTTTTCAACACTACTTCAAGGGGAGCCAACTCATC
* * * * *
2663940 ACACTTACCTTCCCACACTCTAGGTGAAAGGAAGCATACCTTCCATCCCCGAGCTAGTCAGGTAG
65 ACACCTACATTCCCACACTCTAGGTAAAAGAAAGCATACCTTCCACCCCCGAGCTAGTCAGGTAG
2664005 AGTCATCCCATGACTGCTTTCATTCACTCATGTGCTAAGGATACCATTTATTTAAGGGGGTTTCC
130 AGTCATCCCATGACTGCTTTCATTCACTCATGTGCTAAGGATACCATTTATTTAAGGGGGTTTCC
* *
2664070 AGGTAAAGTTGTTGCACAGAGCACTATCCCTCTACATTTATGCAGAGGGAATTTATTTGCAATCA
195 AGGTAAAGCTGTTGCACAGAGCACTATCCCTCTACATTTATGCAGAGGGAATTTATTTACAATCA
2664135 TTTTCAATCTTAAT
260 TTTTCAATCTTAAT
2664149 GCTAAGGAGT
Statistics
Matches: 254, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
273 203 0.80
274 51 0.20
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (275 bp):
TCATGTTTATTCAACATGTAACTTTATTTTTTTTCAACACTACTTCAAGGGGAGCCAACTCATCA
CACCTACATTCCCACACTCTAGGTAAAAGAAAGCATACCTTCCACCCCCGAGCTAGTCAGGTAGA
GTCATCCCATGACTGCTTTCATTCACTCATGTGCTAAGGATACCATTTATTTAAGGGGGTTTCCA
GGTAAAGCTGTTGCACAGAGCACTATCCCTCTACATTTATGCAGAGGGAATTTATTTACAATCAT
TTTCAATCTTAATCT
Found at i:2671287 original size:30 final size:30
Alignment explanation
Indices: 2671251--2671361 Score: 150
Period size: 30 Copynumber: 3.7 Consensus size: 30
2671241 AACAGTAAAT
* *
2671251 ATAGAAAGTTAAAGGACCAAAATAGCAAAA
1 ATAGAAACTTAAAGGACTAAAATAGCAAAA
*
2671281 ATAGAAACTTAAAGGACTAAAATAGCTAAA
1 ATAGAAACTTAAAGGACTAAAATAGCAAAA
* * *
2671311 ATAGCAAGTTAAAGGACTAAAATAGAAAAA
1 ATAGAAACTTAAAGGACTAAAATAGCAAAA
* *
2671341 ATAGAAACTTAAGGGATTAAA
1 ATAGAAACTTAAAGGACTAAA
2671362 CAATAACTAC
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 70 1.00
ACGTcount: A:0.58, C:0.08, G:0.16, T:0.18
Consensus pattern (30 bp):
ATAGAAACTTAAAGGACTAAAATAGCAAAA
Found at i:2671333 original size:60 final size:61
Alignment explanation
Indices: 2671246--2671361 Score: 180
Period size: 60 Copynumber: 1.9 Consensus size: 61
2671236 GATTGAACAG
*
2671246 TAAATATAGAAAGTTAAAGGACCAAAATAGCAAAAATAGAAACTTAAAGGACTAAAATAGC
1 TAAATATAGAAAGTTAAAGGACCAAAATAGAAAAAATAGAAACTTAAAGGACTAAAATAGC
* * * *
2671307 TAAA-ATAGCAAGTTAAAGGACTAAAATAGAAAAAATAGAAACTTAAGGGATTAAA
1 TAAATATAGAAAGTTAAAGGACCAAAATAGAAAAAATAGAAACTTAAAGGACTAAA
2671362 CAATAACTAC
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
60 46 0.92
61 4 0.08
ACGTcount: A:0.58, C:0.08, G:0.16, T:0.19
Consensus pattern (61 bp):
TAAATATAGAAAGTTAAAGGACCAAAATAGAAAAAATAGAAACTTAAAGGACTAAAATAGC
Found at i:2676378 original size:43 final size:42
Alignment explanation
Indices: 2676288--2676479 Score: 175
Period size: 40 Copynumber: 4.6 Consensus size: 42
2676278 CTGGTAGTCA
* *
2676288 GGTGACACGACTCCTACGTGTTGA-GAAGATCTGGTTGAT---G
1 GGTGACACGACTCCTACGTGATGAGGACGA-CTGGTT-ATCAGG
* * * *
2676328 GATGACACGGCTCATACGCGATGAGGACGACTGGTTATCTAGG
1 GGTGACACGACTCCTACGTGATGAGGACGACTGGTTATC-AGG
* *
2676371 GGTGACACGACTCCTACGTGATGAGGAGGTCTGG---TC-GG
1 GGTGACACGACTCCTACGTGATGAGGACGACTGGTTATCAGG
** *
2676409 GTGATGACACGGTTCCTATGTGATGAGGACGACTGGTTATCAGG
1 G-G-TGACACGACTCCTACGTGATGAGGACGACTGGTTATCAGG
*
2676453 GGTGACACGACTCCTACGTGATAAGGA
1 GGTGACACGACTCCTACGTGATGAGGA
2676480 TGTCTGGTCG
Statistics
Matches: 120, Mismatches: 21, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
38 3 0.03
39 3 0.03
40 54 0.45
41 4 0.03
42 21 0.17
43 32 0.27
44 3 0.03
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (42 bp):
GGTGACACGACTCCTACGTGATGAGGACGACTGGTTATCAGG
Found at i:2676404 original size:83 final size:82
Alignment explanation
Indices: 2676251--2676498 Score: 297
Period size: 83 Copynumber: 3.0 Consensus size: 82
2676241 TGGTGGGGAC
* * * * *
2676251 GACACGACTCATACGCGATGAAGAGGTCTGG-TAGTCA--GGTGACACGACTCCTACGTGTTGAG
1 GACACGGCTCATACGCGATGAGGACGACTGGTTA-TCAGGGGTGACACGACTCCTACGTGATGAG
* * * *
2676313 AAGATCTGGT-TGATGGAT
65 GAGGTCTGGTCGGGT-GAT
2676331 GACACGGCTCATACGCGATGAGGACGACTGGTTATCTAGGGGTGACACGACTCCTACGTGATGAG
1 GACACGGCTCATACGCGATGAGGACGACTGGTTATC-AGGGGTGACACGACTCCTACGTGATGAG
2676396 GAGGTCTGGTCGGGTGAT
65 GAGGTCTGGTCGGGTGAT
* * * * *
2676414 GACACGGTTCCTATGTGATGAGGACGACTGGTTATCAGGGGTGACACGACTCCTACGTGATAAGG
1 GACACGGCTCATACGCGATGAGGACGACTGGTTATCAGGGGTGACACGACTCCTACGTGATGAGG
* *
2676479 ATGTCTGGTCGGGGGAT
66 AGGTCTGGTCGGGTGAT
2676496 GAC
1 GAC
2676499 GCGGTTCCTT
Statistics
Matches: 147, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
80 29 0.20
81 3 0.02
82 46 0.31
83 67 0.46
84 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (82 bp):
GACACGGCTCATACGCGATGAGGACGACTGGTTATCAGGGGTGACACGACTCCTACGTGATGAGG
AGGTCTGGTCGGGTGAT
Found at i:2676432 original size:40 final size:39
Alignment explanation
Indices: 2676241--2676498 Score: 148
Period size: 40 Copynumber: 6.4 Consensus size: 39
2676231 ATATGATTTT
* * * * *
2676241 TGGT-GGGGACGACACGACTCATACGCGATGAAGAGGTC
1 TGGTCGGGGATGACACGACTCCTACGTGATGAGGACGTC
* * * *
2676279 TGGTAGTCAGG-TGACACGACTCCTACGTGTTGA-GAAGATC
1 TGGTCG--GGGATGACACGACTCCTACGTGATGAGGACG-TC
* * * * * *
2676319 TGGTTGATGGATGACACGGCTCATACGCGATGAGGACGAC
1 TGGTCG-GGGATGACACGACTCCTACGTGATGAGGACGTC
*
2676359 TGGTTATCTAGGGG-TGACACGACTCCTACGTGATGAGGAGGTC
1 TGG---TC--GGGGATGACACGACTCCTACGTGATGAGGACGTC
** * *
2676402 TGGTCGGGTGATGACACGGTTCCTATGTGATGAGGACGAC
1 TGGTCGGG-GATGACACGACTCCTACGTGATGAGGACGTC
* *
2676442 TGGTTATCAGGGG-TGACACGACTCCTACGTGATAAGGATGTC
1 TGG---TC-GGGGATGACACGACTCCTACGTGATGAGGACGTC
2676484 TGGTCGGGGGATGAC
1 TGGTC-GGGGATGAC
2676499 GCGGTTCCTT
Statistics
Matches: 168, Mismatches: 34, Indels: 34
0.71 0.14 0.14
Matches are distributed among these distances:
38 7 0.04
39 13 0.08
40 80 0.48
41 5 0.03
42 26 0.15
43 31 0.18
44 5 0.03
45 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.23
Consensus pattern (39 bp):
TGGTCGGGGATGACACGACTCCTACGTGATGAGGACGTC
Found at i:2676488 original size:82 final size:83
Alignment explanation
Indices: 2676288--2676519 Score: 299
Period size: 83 Copynumber: 2.8 Consensus size: 83
2676278 CTGGTAGTCA
* * * * *
2676288 GGTGACACGACTCCTACGTGTTGA-GAAGATCTGGT-TGATGGATGACACGGCTCATACGCGATG
1 GGTGACACGACTCCTACGTGATGAGGAAG-TCTGGTCGGGT-GATGACACGGTTCCTACGCGATG
2676351 AGGACGACTGGTTATCTAGG
64 AGGACGACTGGTTATCTAGG
* * *
2676371 GGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGTGATGACACGGTTCCTATGTGATGAG
1 GGTGACACGACTCCTACGTGATGAGGAAGTCTGGTCGGGTGATGACACGGTTCCTACGCGATGAG
2676436 GACGACTGGTTATC-AGG
66 GACGACTGGTTATCTAGG
* * * * * *
2676453 GGTGACACGACTCCTACGTGATAAGGATGTCTGGTCGGGGGATGACGCGGTTCCTTCACGATGAG
1 GGTGACACGACTCCTACGTGATGAGGAAGTCTGGTCGGGTGATGACACGGTTCCTACGCGATGAG
2676518 GA
66 GA
2676520 TGGTAGGCCA
Statistics
Matches: 131, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
82 62 0.47
83 64 0.49
84 5 0.04
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.24
Consensus pattern (83 bp):
GGTGACACGACTCCTACGTGATGAGGAAGTCTGGTCGGGTGATGACACGGTTCCTACGCGATGAG
GACGACTGGTTATCTAGG
Found at i:2676727 original size:26 final size:27
Alignment explanation
Indices: 2676698--2676750 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
2676688 ATGTCTCGAG
*
2676698 AGAC-AAAAATTTGTTTCCAAAGAAAC
1 AGACTAAAAATTTGTTTCAAAAGAAAC
* * *
2676724 AGACTCAAAATTTTTTTTAAAAGAAAC
1 AGACTAAAAATTTGTTTCAAAAGAAAC
2676751 TGTCTCGAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.28
Consensus pattern (27 bp):
AGACTAAAAATTTGTTTCAAAAGAAAC
Found at i:2680172 original size:15 final size:15
Alignment explanation
Indices: 2680140--2680169 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2680130 AATGAAATGC
2680140 AGATGCAAAATGCAA
1 AGATGCAAAATGCAA
2680155 AGATGC-AAATGCAA
1 AGATGCAAAATGCAA
2680169 A
1 A
2680170 AGAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.53, C:0.13, G:0.20, T:0.13
Consensus pattern (15 bp):
AGATGCAAAATGCAA
Found at i:2680739 original size:28 final size:31
Alignment explanation
Indices: 2680690--2680747 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 31
2680680 TGACAAAATG
*
2680690 ACACAAACAAAAAAGAATAAATAAGTTAGTGT
1 ACACAAAC-AAAAAGAATAAATAAATTAGTGT
2680722 ACACAAAC-AAAAG-A-AAATAAATTAGT
1 ACACAAACAAAAAGAATAAATAAATTAGT
2680748 CAGTACAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 11 0.44
29 1 0.04
30 5 0.20
32 8 0.32
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.17
Consensus pattern (31 bp):
ACACAAACAAAAAGAATAAATAAATTAGTGT
Found at i:2686334 original size:30 final size:31
Alignment explanation
Indices: 2686270--2686338 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
2686260 TTGGTTAAAT
* *
2686270 AAATTTCAGTTCGATTAATGGTTACAGAAAA
1 AAATTTCAGTTCGATTAACGGTTAAAGAAAA
* *
2686301 AAATTTCGGTTTGATTAACGGTTAAAGAAAA
1 AAATTTCAGTTCGATTAACGGTTAAAGAAAA
2686332 AATATTT
1 AA-ATTT
2686339 TATTTGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 29 0.88
32 4 0.12
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (31 bp):
AAATTTCAGTTCGATTAACGGTTAAAGAAAA
Found at i:2686411 original size:67 final size:68
Alignment explanation
Indices: 2686351--2686479 Score: 185
Period size: 67 Copynumber: 2.0 Consensus size: 68
2686341 TTTGAAAATT
2686351 ATTAACCAAACC-AAATTAACTGAA-TTTTTTTCTTTAA-CATTAATCGAACCGAAATTATTTG-
1 ATTAACCAAACCGAAATTAACTGAATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGA
2686412 ACC
66 ACC
* * * * *
2686415 ATTAATCGAACCGAAATTTATTTAATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGA
1 ATTAACCAAACCGAAATTAACTGAATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGA
2686480 CTGTTAATTG
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
64 10 0.18
65 9 0.16
66 13 0.23
67 24 0.43
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (68 bp):
ATTAACCAAACCGAAATTAACTGAATTTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGA
ACC
Found at i:2686480 original size:67 final size:66
Alignment explanation
Indices: 2686375--2686506 Score: 219
Period size: 67 Copynumber: 2.0 Consensus size: 66
2686365 ATTAACTGAA
*
2686375 TTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACCATTAATCGAACCGAAATTTATTTAA
1 TTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACCATTAATCGAACCAAAATTTATTTAA
2686440 T
66 T
** *
2686441 TTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACTGTTAATTGAACCAAAATTTATTTA
1 TTTTTTTCTTTAA-CATTAATCGAACCGAAATTATTTGACCATTAATCGAACCAAAATTTATTTA
2686506 A
65 A
2686507 AAATTATTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
66 13 0.21
67 48 0.79
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (66 bp):
TTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACCATTAATCGAACCAAAATTTATTTAA
T
Found at i:2686531 original size:81 final size:81
Alignment explanation
Indices: 2686441--2686603 Score: 265
Period size: 81 Copynumber: 2.0 Consensus size: 81
2686431 TTTATTTAAT
* * *
2686441 TTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACTGTTAATTGAA-CCAAAATTTATTT
1 TTTTTTTCTTTAACCATTAATCGAAACGAAATTATTTGACCGTTAATCGAATCC-AAATTTATTT
2686505 AAAAATTATTAACCGAA
65 AAAAATTATTAACCGAA
*
2686522 TTTTTTTCTTTAACCATTAATCGAAACGAAATTATTTGACCGTTAATCGAATCCAAATTTATTTG
1 TTTTTTTCTTTAACCATTAATCGAAACGAAATTATTTGACCGTTAATCGAATCCAAATTTATTTA
*
2686587 AAAATTATTATCCGAA
66 AAAATTATTAACCGAA
2686603 T
1 T
2686604 AAAATAAATT
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
81 74 0.97
82 2 0.03
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (81 bp):
TTTTTTTCTTTAACCATTAATCGAAACGAAATTATTTGACCGTTAATCGAATCCAAATTTATTTA
AAAATTATTAACCGAA
Found at i:2686721 original size:159 final size:160
Alignment explanation
Indices: 2686515--2686879 Score: 565
Period size: 159 Copynumber: 2.3 Consensus size: 160
2686505 AAAAATTATT
2686515 AACCGAATTTTTTTCTTTAACCATTAATCGAAA-CGAAATTATTTGACCGTTAATCGAATCCAAA
1 AACCGAATTTTTTTCTTTAACCATTAATC-AAACCGAAATTATTTGACCGTTAATCGAATCCAAA
* *
2686579 TTTATTTGAAAATTATTATCCGAATAAAATAAATTATTTTTAT-TTAATCGTTAATCGAACCGAA
65 TTTATTTGAAAATTATTAACCGAATAAAATAAATT-TTTTTATCTTAACCGTTAATCGAACCGAA
2686643 ATTTATTTGAAAATTATTAACCGAATCAAATC
129 ATTTATTTGAAAATTATTAACCGAATCAAATC
* *
2686675 AACCG-GTTTTTTTCTTTAACCATTAATCAAACCGAAATTATTTGACCGTTAATCGAATCGAAAT
1 AACCGAATTTTTTTCTTTAACCATTAATCAAACCGAAATTATTTGACCGTTAATCGAATCCAAAT
* *
2686739 TTATTTGAAAATTATTAACCGAATAAAATAAATTTTTTTTTCCTTAACCGTTAATCGAACTGAAA
66 TTATTTGAAAATTATTAACCGAATAAAATAAATTTTTTTAT-CTTAACCGTTAATCGAACCGAAA
* *
2686804 TTTATTTGAAAATTATTAACCGAATCGAATT
130 TTTATTTGAAAATTATTAACCGAATCAAATC
** * *
2686835 AACCGAATTTTTTTCTGGAACCATTAATCGAACTGAAATTTATTT
1 AACCGAATTTTTTTCTTTAACCATTAATCAAACCGAAA-TTATTT
2686880 ATCCAAATAA
Statistics
Matches: 187, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
158 9 0.05
159 86 0.46
160 59 0.32
161 27 0.14
162 6 0.03
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (160 bp):
AACCGAATTTTTTTCTTTAACCATTAATCAAACCGAAATTATTTGACCGTTAATCGAATCCAAAT
TTATTTGAAAATTATTAACCGAATAAAATAAATTTTTTTATCTTAACCGTTAATCGAACCGAAAT
TTATTTGAAAATTATTAACCGAATCAAATC
Found at i:2686725 original size:94 final size:93
Alignment explanation
Indices: 2686617--2686812 Score: 268
Period size: 94 Copynumber: 2.1 Consensus size: 93
2686607 ATAAATTATT
* * * *
2686617 TTTATTTAATCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAATCAAATCAACCGGT
1 TTTATTTGACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAATAAAAT-AA-AGGT
*
2686682 TTTTTTCTTTAACCATTAATCAAACCGAAA
64 TTTTTTCCTTAACCATTAATCAAACCGAAA
* **
2686712 -TTATTTGACCGTTAATCGAATCGAAATTTATTTGAAAATTATTAACCGAATAAAATAAATTTTT
1 TTTATTTGACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAATAAAATAAAGGTTT
* * *
2686776 TTTTCCTTAACCGTTAATCGAACTGAAA
66 TTTTCCTTAACCATTAATCAAACCGAAA
2686804 TTTATTTGA
1 TTTATTTGA
2686813 AAATTATTAA
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
92 27 0.30
93 10 0.11
94 52 0.58
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.39
Consensus pattern (93 bp):
TTTATTTGACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAATAAAATAAAGGTTT
TTTTCCTTAACCATTAATCAAACCGAAA
Found at i:2686878 original size:69 final size:66
Alignment explanation
Indices: 2686723--2686879 Score: 194
Period size: 66 Copynumber: 2.3 Consensus size: 66
2686713 TATTTGACCG
* *
2686723 TTAATCGAA-TCGAAATTTATTTGAAAATTATTAACCGAATAAAATAAATTTTTTTTTCCTTAAC
1 TTAATCGAACT-GAAATTTATTTGAAAATTATTAACCGAATAAAATAAATATTTTTTTCCTGAAC
*
2686787 CG
65 CA
* *
2686789 TTAATCGAACTGAAATTTATTTGAAAATTATTAACCGAATCGAATTAACCGA-ATTTTTTT-CTG
1 TTAATCGAACTGAAATTTATTTGAAAATTATTAACCGAAT-AAAATAA---ATATTTTTTTCCT-
2686852 GAACCA
61 GAACCA
2686858 TTAATCGAACTGAAATTTATTT
1 TTAATCGAACTGAAATTTATTT
2686880 ATCCAAATAA
Statistics
Matches: 80, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
66 38 0.47
67 6 0.08
68 2 0.03
69 33 0.41
70 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (66 bp):
TTAATCGAACTGAAATTTATTTGAAAATTATTAACCGAATAAAATAAATATTTTTTTCCTGAACC
A
Found at i:2688304 original size:46 final size:45
Alignment explanation
Indices: 2688208--2688340 Score: 194
Period size: 46 Copynumber: 2.9 Consensus size: 45
2688198 TATTCGATTT
*
2688208 AAGTTAAGTTTATAAAATTTTATTTTATTCAAAATTTAATCACTC
1 AAGTTAAGTTTATAAAATTTTATTCTATTCAAAATTTAATCACTC
* * * *
2688253 AAGTTAAGTTTATAAAATTGTTAATCTACTCAAAATTTAATTATTC
1 AAGTTAAGTTTATAAAATT-TTATTCTATTCAAAATTTAATCACTC
*
2688299 GAGTTAAGTTTATAAAATTTTTATTCTATTCAAAATTTAATC
1 AAGTTAAGTTTATAAAA-TTTTATTCTATTCAAAATTTAATC
2688341 TAACATATAT
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
45 19 0.25
46 56 0.73
47 2 0.03
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (45 bp):
AAGTTAAGTTTATAAAATTTTATTCTATTCAAAATTTAATCACTC
Found at i:2688415 original size:8 final size:8
Alignment explanation
Indices: 2688345--2688420 Score: 73
Period size: 8 Copynumber: 9.6 Consensus size: 8
2688335 TTAATCTAAC
*
2688345 ATATATAT
1 ATATATTT
*
2688353 ATATATAT
1 ATATATTT
*
2688361 ATATATAT
1 ATATATTT
*
2688369 ATATATAT
1 ATATATTT
*
2688377 ATATATAT
1 ATATATTT
*
2688385 ATATATAT
1 ATATATTT
*
2688393 ATATATAT
1 ATATATTT
2688401 ATA-ATTT
1 ATATATTT
*
2688408 TTATATTT
1 ATATATTT
2688416 ATATA
1 ATATA
2688421 ACAGGTAAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
7 5 0.08
8 59 0.92
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
ATATATTT
Done.