Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 217 of 311
Found at i:74260375 original size:16 final size:16
Alignment explanation
Indices: 74260354--74260384 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
74260344 GGAGTAAATG
*
74260354 GAATAGAGTTATAATA
1 GAATAGAGATATAATA
74260370 GAATAGAGATATAAT
1 GAATAGAGATATAAT
74260385 GAAATAGAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (16 bp):
GAATAGAGATATAATA
Found at i:74260390 original size:16 final size:16
Alignment explanation
Indices: 74260350--74260392 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
74260340 GGTTGGAGTA
* *
74260350 AATGGAATAGAGTTAT
1 AATGAAATAGAGATAT
74260366 AAT-AGAATAGAGATAT
1 AATGA-AATAGAGATAT
74260382 AATGAAATAGA
1 AATGAAATAGA
74260393 ACTGTAACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 22 0.96
17 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (16 bp):
AATGAAATAGAGATAT
Found at i:74260689 original size:24 final size:23
Alignment explanation
Indices: 74260649--74260709 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
74260639 TAACATAATT
74260649 ATTATT-ATATAAT-TTAATAAC
1 ATTATTAATATAATATTAATAAC
*
74260670 ATTATTAATATAATTATTAATAAT
1 ATTATTAATATAA-TATTAATAAC
74260694 A-T-TTAATATAATATTA
1 ATTATTAATATAATATTA
74260710 TTATTAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 11 0.31
22 15 0.42
23 2 0.06
24 8 0.22
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTATTAATATAATATTAATAAC
Found at i:74260693 original size:15 final size:14
Alignment explanation
Indices: 74260670--74260722 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 14
74260660 ATTTAATAAC
74260670 ATTATTAAT-ATA-
1 ATTATTAATAATAT
74260682 ATTATTAATAATAT
1 ATTATTAATAATAT
*
74260696 -TTAAT-ATAATATT
1 ATTATTAATAATA-T
*
74260709 ATTATTAAAAATAT
1 ATTATTAATAATAT
74260723 TTCAATGCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
12 15 0.45
13 8 0.24
14 5 0.15
15 5 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTATTAATAATAT
Found at i:74261409 original size:7 final size:7
Alignment explanation
Indices: 74261397--74261422 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
74261387 CCTCCATTAA
74261397 GCAGCTG
1 GCAGCTG
74261404 GCAGCTG
1 GCAGCTG
74261411 GCAGCTG
1 GCAGCTG
74261418 GCAGC
1 GCAGC
74261423 AGATATCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.31, G:0.42, T:0.12
Consensus pattern (7 bp):
GCAGCTG
Found at i:74264770 original size:46 final size:46
Alignment explanation
Indices: 74264699--74264788 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
74264689 ACAATTCTAC
*
74264699 TCAATGGGTCCAATACAAACAGCTATTTAATTGAATGGAATAAGAT
1 TCAATAGGTCCAATACAAACAGCTATTTAATTGAATGGAATAAGAT
* * * *
74264745 TCAATAGGTTCAATACAAACCGCTATTTGATTGAGTGGAATAAG
1 TCAATAGGTCCAATACAAACAGCTATTTAATTGAATGGAATAAG
74264789 GGCTAGTTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (46 bp):
TCAATAGGTCCAATACAAACAGCTATTTAATTGAATGGAATAAGAT
Found at i:74268101 original size:23 final size:20
Alignment explanation
Indices: 74268060--74268114 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
74268050 AATAATAAAG
*
74268060 TAAATCATATATTATTTTTA
1 TAAATTATATATTATTTTTA
*
74268080 TAATATTATATATTATGATTTTT
1 TAA-ATTATATATTAT--TTTTA
74268103 TAAATT-TATATT
1 TAAATTATATATT
74268115 TTAATAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 3 0.10
21 17 0.57
22 3 0.10
23 7 0.23
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
TAAATTATATATTATTTTTA
Found at i:74268151 original size:39 final size:39
Alignment explanation
Indices: 74268072--74268154 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 39
74268062 AATCATATAT
* * * *
74268072 TATTTTTATAATATTATATATTATGATTTTTTAAATTTA
1 TATTTTAATAATAATATATATTAAGATTTATTAAATTTA
74268111 TATTTTAATAATAAT-TATATTAAGAATGTTATTAAATTATA
1 TATTTTAATAATAATATATATTAAG-AT-TTATTAAATT-TA
74268152 TAT
1 TAT
74268155 GATTTTATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
38 8 0.22
39 15 0.41
40 9 0.24
41 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (39 bp):
TATTTTAATAATAATATATATTAAGATTTATTAAATTTA
Found at i:74270194 original size:28 final size:28
Alignment explanation
Indices: 74270162--74270215 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
74270152 TTTTGTAAAA
74270162 TTTAT-AAATTTAATTTTTATACTTTTAT
1 TTTATCAAATTTAA-TTTTATACTTTTAT
* *
74270190 TTTATCAATTTTAATTTTATTCTTTT
1 TTTATCAAATTTAATTTTATACTTTT
74270216 TGAATTTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTATCAAATTTAATTTTATACTTTTAT
Found at i:74270208 original size:15 final size:14
Alignment explanation
Indices: 74270162--74270209 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
74270152 TTTTGTAAAA
*
74270162 TTTATAAATTTAATT
1 TTTATAATTTTAA-T
*
74270177 TTTATACTTTT-AT
1 TTTATAATTTTAAT
74270190 TTTATCAATTTTAAT
1 TTTAT-AATTTTAAT
74270205 TTTAT
1 TTTAT
74270210 TCTTTTTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 16 0.57
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTATAATTTTAAT
Found at i:74273842 original size:42 final size:43
Alignment explanation
Indices: 74273734--74273905 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
74273724 AACATATACA
* * * *
74273734 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAGATATCG
* *
74273777 ATGCC-ACTATCCCAGACAGGGTCTTACACGAAATCAGATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAGATATCG
* * * * *
74273819 ATTCCAATGTCCCAGACATGGTCTTACACGCAAAACAGAAATTG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCAGATATCG
* *
74273863 ATGCCAACGTCTCAGACGTGGTCTTACACGCAGAA-CAGATATC
1 ATGCCAACGTCCCAGACATGGTCTTACACG-A-AATCAGATATC
74273906 AAAATTCCTA
Statistics
Matches: 105, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
42 28 0.27
43 40 0.38
44 35 0.33
45 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAGATATCG
Found at i:74278597 original size:31 final size:31
Alignment explanation
Indices: 74278562--74278623 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
74278552 ATTTACTTAG
74278562 CCATATCGGTGTGAGGCTGCTTGGAGTTGAT
1 CCATATCGGTGTGAGGCTGCTTGGAGTTGAT
*
74278593 CCATATCGGTGTGAGGCTGGTTGGAGTTGAT
1 CCATATCGGTGTGAGGCTGCTTGGAGTTGAT
74278624 GCTGAGATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.16, C:0.15, G:0.37, T:0.32
Consensus pattern (31 bp):
CCATATCGGTGTGAGGCTGCTTGGAGTTGAT
Found at i:74288742 original size:193 final size:193
Alignment explanation
Indices: 74288413--74288798 Score: 772
Period size: 193 Copynumber: 2.0 Consensus size: 193
74288403 GCTGATATCT
74288413 ATTTCTGGTTTGATTGTATTCTCAAACTTTATAGCTTCTTTTTCCTCAGCATTCATGTAGAAGCA
1 ATTTCTGGTTTGATTGTATTCTCAAACTTTATAGCTTCTTTTTCCTCAGCATTCATGTAGAAGCA
74288478 GAAAATATAAATTCTGCTTTTTCTCTATGCCAATCCCGATAGGATAATTATCACACATTAGTCAC
66 GAAAATATAAATTCTGCTTTTTCTCTATGCCAATCCCGATAGGATAATTATCACACATTAGTCAC
74288543 ATGTTCCACTTCAATCATATCAAGCCGTACCGCCGACCAACGTTGCACCTATGCTTATGGACA
131 ATGTTCCACTTCAATCATATCAAGCCGTACCGCCGACCAACGTTGCACCTATGCTTATGGACA
74288606 ATTTCTGGTTTGATTGTATTCTCAAACTTTATAGCTTCTTTTTCCTCAGCATTCATGTAGAAGCA
1 ATTTCTGGTTTGATTGTATTCTCAAACTTTATAGCTTCTTTTTCCTCAGCATTCATGTAGAAGCA
74288671 GAAAATATAAATTCTGCTTTTTCTCTATGCCAATCCCGATAGGATAATTATCACACATTAGTCAC
66 GAAAATATAAATTCTGCTTTTTCTCTATGCCAATCCCGATAGGATAATTATCACACATTAGTCAC
74288736 ATGTTCCACTTCAATCATATCAAGCCGTACCGCCGACCAACGTTGCACCTATGCTTATGGACA
131 ATGTTCCACTTCAATCATATCAAGCCGTACCGCCGACCAACGTTGCACCTATGCTTATGGACA
74288799 CGTGCTTGAA
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
193 193 1.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (193 bp):
ATTTCTGGTTTGATTGTATTCTCAAACTTTATAGCTTCTTTTTCCTCAGCATTCATGTAGAAGCA
GAAAATATAAATTCTGCTTTTTCTCTATGCCAATCCCGATAGGATAATTATCACACATTAGTCAC
ATGTTCCACTTCAATCATATCAAGCCGTACCGCCGACCAACGTTGCACCTATGCTTATGGACA
Found at i:74304402 original size:29 final size:30
Alignment explanation
Indices: 74304369--74304437 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 30
74304359 AAAATTAAAT
74304369 AGTTGGGTGATC-ATTTTGTAACTTTTCAC
1 AGTTGGGTGATCTATTTTGTAACTTTTCAC
* *
74304398 AGTTGGGTG-GCTATTTTGTAACTTTTCAT
1 AGTTGGGTGATCTATTTTGTAACTTTTCAC
*
74304427 AGTTTGGTGAT
1 AGTTGGGTGAT
74304438 AAAAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.03
29 33 0.97
ACGTcount: A:0.19, C:0.10, G:0.25, T:0.46
Consensus pattern (30 bp):
AGTTGGGTGATCTATTTTGTAACTTTTCAC
Found at i:74305932 original size:83 final size:87
Alignment explanation
Indices: 74305831--74306058 Score: 234
Period size: 90 Copynumber: 2.6 Consensus size: 87
74305821 CATAGTAGTT
* *
74305831 TAAGTAAAAATGAATTGCAAATACTTATGAGTGTATATATATATGGCATTGTTACGTGTTATAA-
1 TAAGCAAAGATGAATTGCAAATACTTATGAGTGTATATATATATGGCATTGTTACGTGTTATAAC
*
74305895 TG-GAGGTT-G-CACGGTAGGA
66 AGAGAGGTTGGTCACGGTAGGA
* * * *
74305914 TAAGCAAAGATGAATTGCAAATACTTA--CGTGTCTACATATATGGCATTGTTATGTGTTATAAC
1 TAAGCAAAGATGAATTGCAAATACTTATGAGTGTATATATATATGGCATTGTTACGTGTTATAAC
* **
74305977 AGAAGATGTTAAGGGGTCACGGTAGTT
66 AG-AGAGGTT----GGTCACGGTAGGA
* * * * *
74306004 TAAGCAAAGACGAATTGCAAGTACTTATGTGTATATATATGTATGGCATTGTTAC
1 TAAGCAAAGATGAATTGCAAATACTTATGAGTGTATATATATATGGCATTGTTAC
74306059 TGATAAAATG
Statistics
Matches: 116, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
81 31 0.27
82 1 0.01
83 25 0.22
84 5 0.04
89 1 0.01
90 33 0.28
92 20 0.17
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.33
Consensus pattern (87 bp):
TAAGCAAAGATGAATTGCAAATACTTATGAGTGTATATATATATGGCATTGTTACGTGTTATAAC
AGAGAGGTTGGTCACGGTAGGA
Found at i:74306982 original size:29 final size:29
Alignment explanation
Indices: 74306942--74306997 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
74306932 ATAGGGATTT
* * *
74306942 GATCAAATTAGTCCCTCTACTGTTAAATA
1 GATCAAATTAGTACCTATACTATTAAATA
74306971 GATC-AATATAGTACCTATACTATTAAA
1 GATCAAAT-TAGTACCTATACTATTAAA
74306998 AAGAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.13
29 20 0.87
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (29 bp):
GATCAAATTAGTACCTATACTATTAAATA
Found at i:74318746 original size:22 final size:22
Alignment explanation
Indices: 74318720--74318762 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
74318710 TATTTAAAAA
**
74318720 ATAAAAAAATTTAAAATTAATT
1 ATAAAAAAATAAAAAATTAATT
*
74318742 ATAAAAATATAAAAAATTAAT
1 ATAAAAAAATAAAAAATTAAT
74318763 AAAAACTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
ATAAAAAAATAAAAAATTAATT
Found at i:74318749 original size:20 final size:19
Alignment explanation
Indices: 74318714--74318772 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
74318704 ATTCTCTATT
*
74318714 TAAAAAA-TAA-AAAAATT
1 TAAAAAATTAATAAAAATA
74318731 TAAAATTAATT-ATAAAAATA
1 TAAAA--AATTAATAAAAATA
74318751 TAAAAAATTAATAAAAACTA
1 TAAAAAATTAATAAAAA-TA
74318771 TA
1 TA
74318773 CTCAAATTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
17 5 0.14
18 4 0.11
19 10 0.29
20 16 0.46
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
TAAAAAATTAATAAAAATA
Found at i:74318772 original size:28 final size:28
Alignment explanation
Indices: 74318716--74318772 Score: 64
Period size: 28 Copynumber: 2.0 Consensus size: 28
74318706 TCTCTATTTA
* *
74318716 AAAAATAAAAAAATTTAAAATTAATTAT
1 AAAAATAAAAAAATTTAAAATAAACTAT
74318744 AAAAATATAAAAAA-TTAATAA-AAACTAT
1 AAAAATA-AAAAAATTTAA-AATAAACTAT
74318772 A
1 A
74318773 CTCAAATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (28 bp):
AAAAATAAAAAAATTTAAAATAAACTAT
Found at i:74328042 original size:10 final size:10
Alignment explanation
Indices: 74328027--74328064 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
74328017 TTAAATTATA
74328027 AAAGATAATT
1 AAAGATAATT
74328037 AAAGATAATT
1 AAAGATAATT
*
74328047 AAAGATAAAT
1 AAAGATAATT
74328057 AAAGATAA
1 AAAGATAA
74328065 AAGTTAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.24
Consensus pattern (10 bp):
AAAGATAATT
Found at i:74328072 original size:17 final size:17
Alignment explanation
Indices: 74328024--74328072 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 17
74328014 TAATTAAATT
*
74328024 ATAAAAGATAATTAAAG
1 ATAAAAGATAAATAAAG
74328041 ATAATTAAAGATAAATAAAG
1 AT-A--AAAGATAAATAAAG
*
74328061 ATAAAAGTTAAA
1 ATAAAAGATAAA
74328073 ATTAAATCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 10 0.37
18 1 0.04
19 1 0.04
20 15 0.56
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.24
Consensus pattern (17 bp):
ATAAAAGATAAATAAAG
Found at i:74330676 original size:40 final size:40
Alignment explanation
Indices: 74330581--74330665 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
74330571 TTCTAACTTG
* *
74330581 AAAACCAACTGTTCAACTATTTATATGCAAGAAATTAACA
1 AAAATCAACAGTTCAACTATTTATATGCAAGAAATTAACA
* *
74330621 AAAATCAATAGTTCAA-TAATTTATATGCAATAAATTAACA
1 AAAATCAACAGTTCAACT-ATTTATATGCAAGAAATTAACA
74330661 AAAAT
1 AAAAT
74330666 AAGCGGTTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.03
40 39 0.98
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (40 bp):
AAAATCAACAGTTCAACTATTTATATGCAAGAAATTAACA
Found at i:74337910 original size:20 final size:20
Alignment explanation
Indices: 74337856--74337900 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
74337846 ACATTAGTAT
*
74337856 TTTTATTCTGAATTTTAAGA
1 TTTTATTCTGAATTTTAATA
74337876 TTTTATTCTGAATTTTAATA
1 TTTTATTCTGAATTTTAATA
74337896 TTTTA
1 TTTTA
74337901 ATTTGGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTTATTCTGAATTTTAATA
Found at i:74340821 original size:21 final size:21
Alignment explanation
Indices: 74340736--74340877 Score: 83
Period size: 21 Copynumber: 6.9 Consensus size: 21
74340726 TCTCACGAGC
* *
74340736 TTCCG-TTAACTCATATGAGT
1 TTCCGTTTAACCCTTATGAGT
* * *
74340756 TTCAG-TTAACCCTTACGGGT
1 TTCCGTTTAACCCTTATGAGT
* * * * * *
74340776 TTCAGTTCAGCTCTTATAAGC
1 TTCCGTTTAACCCTTATGAGT
74340797 TTCCGTTTAACCCTTATGAGT
1 TTCCGTTTAACCCTTATGAGT
* * * * *
74340818 TTCCATTTAGCTCTTGTGAGC
1 TTCCGTTTAACCCTTATGAGT
*
74340839 TTCCGTTTAACCCTT-TCAGGT
1 TTCCGTTTAACCCTTATGA-GT
* *
74340860 TTCCGTTTAGCACTTATG
1 TTCCGTTTAACCCTTATG
74340878 TGCTTCAGTT
Statistics
Matches: 88, Mismatches: 31, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
20 22 0.25
21 65 0.74
22 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.41
Consensus pattern (21 bp):
TTCCGTTTAACCCTTATGAGT
Found at i:74340883 original size:42 final size:42
Alignment explanation
Indices: 74340736--74340883 Score: 140
Period size: 42 Copynumber: 3.6 Consensus size: 42
74340726 TCTCACGAGC
* * * * * *
74340736 TTCCG-TTAACTCATATGAGTTTCAG-TTAACCCTTACGGGT
1 TTCCGTTTAGCTCTTATGAGCTTCCGTTTAACCCTTTCAGGT
* * * *
74340776 TTCAGTTCAGCTCTTATAAGCTTCCGTTTAACCCTTATGA-GT
1 TTCCGTTTAGCTCTTATGAGCTTCCGTTTAACCCTT-TCAGGT
* *
74340818 TTCCATTTAGCTCTTGTGAGCTTCCGTTTAACCCTTTCAGGT
1 TTCCGTTTAGCTCTTATGAGCTTCCGTTTAACCCTTTCAGGT
* *
74340860 TTCCGTTTAGCACTTATGTGCTTC
1 TTCCGTTTAGCTCTTATGAGCTTC
74340884 AGTTAGCCTC
Statistics
Matches: 84, Mismatches: 20, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
40 4 0.05
41 16 0.19
42 64 0.76
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.41
Consensus pattern (42 bp):
TTCCGTTTAGCTCTTATGAGCTTCCGTTTAACCCTTTCAGGT
Found at i:74348130 original size:15 final size:15
Alignment explanation
Indices: 74348107--74348140 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
74348097 TATTCCTTTT
74348107 AATTGAAATAAAATA
1 AATTGAAATAAAATA
* *
74348122 AATTTAAATATAATA
1 AATTGAAATAAAATA
74348137 AATT
1 AATT
74348141 ATTTTCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
AATTGAAATAAAATA
Found at i:74351485 original size:16 final size:16
Alignment explanation
Indices: 74351464--74351499 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
74351454 ATTTTTTGAA
74351464 TTATAATATAATAAAT
1 TTATAATATAATAAAT
* *
74351480 TTATAATATTATGAAT
1 TTATAATATAATAAAT
74351496 TTAT
1 TTAT
74351500 GTTTTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TTATAATATAATAAAT
Found at i:74354776 original size:22 final size:22
Alignment explanation
Indices: 74354733--74354780 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
74354723 GAAATTGTTA
* *
74354733 TTTTGTTGTTGTTTTTTCACTG
1 TTTTGTAGTTGTTTTCTCACTG
74354755 TTTTGTAGTTGTTTTC-CTACTG
1 TTTTGTAGTTGTTTTCTC-ACTG
74354777 TTTT
1 TTTT
74354781 CTCACTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.06, C:0.10, G:0.17, T:0.67
Consensus pattern (22 bp):
TTTTGTAGTTGTTTTCTCACTG
Found at i:74362223 original size:14 final size:14
Alignment explanation
Indices: 74362206--74362238 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
74362196 ACTACACTTC
74362206 AAAGACTTCTTTCG
1 AAAGACTTCTTTCG
*
74362220 AAAGACTTCTTTTG
1 AAAGACTTCTTTCG
74362234 AAAGA
1 AAAGA
74362239 GTCAACCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (14 bp):
AAAGACTTCTTTCG
Found at i:74373832 original size:62 final size:60
Alignment explanation
Indices: 74373714--74373849 Score: 186
Period size: 62 Copynumber: 2.2 Consensus size: 60
74373704 CACACTAGTA
*
74373714 GTCACCTAAATATTAGTAAATTTCTTTTTTGGTCACCCAACTCTGAAAAGCTACAAAGTG
1 GTCACCTAAATATTAGTAAATTTCTTTTTTGGTCACCCAACTCTGAAAAGCTACAAAATG
* * *
74373774 GTCACCTAATTATTAGTAAATTTCTTTTTTTTGGTTACCCAAC-CATGAAAAGTTACAAAATG
1 GTCACCTAAATATTAGTAAATTTC--TTTTTTGGTCACCCAACTC-TGAAAAGCTACAAAATG
74373836 GTCA-CTAAACTATT
1 GTCACCTAAA-TATT
74373850 CAATTTTGTC
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
60 23 0.34
61 5 0.07
62 39 0.58
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (60 bp):
GTCACCTAAATATTAGTAAATTTCTTTTTTGGTCACCCAACTCTGAAAAGCTACAAAATG
Found at i:74374077 original size:60 final size:59
Alignment explanation
Indices: 74374010--74374125 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 59
74374000 CTAGCTAGTG
* * *
74374010 ACCAAAAAAGACAAAATT-GAATAATTGGGTGACGATTTTGTAACTTTTCATAGTTAAGTT
1 ACCAAAAAAG--AAAATTAGAATAATTAGATGACCATTTTGTAACTTTTCATAGTTAAGTT
* * *
74374070 ACCAAAAAAGAAATTTACTAATAGTTAGATGACCATTTTGTAACTTTTCATAGTTA
1 ACCAAAAAAGAAAATTA-GAATAATTAGATGACCATTTTGTAACTTTTCATAGTTA
74374126 GATGACCAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
58 5 0.10
60 43 0.90
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (59 bp):
ACCAAAAAAGAAAATTAGAATAATTAGATGACCATTTTGTAACTTTTCATAGTTAAGTT
Found at i:74374134 original size:60 final size:60
Alignment explanation
Indices: 74374039--74374155 Score: 184
Period size: 60 Copynumber: 1.9 Consensus size: 60
74374029 AATAATTGGG
* *
74374039 TGACGATTTTGTAACTTTTCATAGTTAAGTTACCAAA-AAAGAAATTTACTAATAGTTAGA
1 TGACCATTTTGTAACTTTTCATAGTTAAGTGACCAAATAAA-AAATTTACTAATAGTTAGA
74374099 TGACCATTTTGTAACTTTTCATAGTT-AGATGACCAAATAAAAAATTTACTAATAGTT
1 TGACCATTTTGTAACTTTTCATAGTTAAG-TGACCAAATAAAAAATTTACTAATAGTT
74374156 TAGGTGACTA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
59 2 0.04
60 48 0.91
61 3 0.06
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (60 bp):
TGACCATTTTGTAACTTTTCATAGTTAAGTGACCAAATAAAAAATTTACTAATAGTTAGA
Found at i:74380257 original size:11 final size:12
Alignment explanation
Indices: 74380228--74380260 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
74380218 AAAATGGGAA
*
74380228 AGAAAACTTAAG
1 AGAAAACTAAAG
74380240 AGAAAACTAAAG
1 AGAAAACTAAAG
74380252 -GAAAACTAA
1 AGAAAACTAA
74380261 GCAAAAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.64, C:0.09, G:0.15, T:0.12
Consensus pattern (12 bp):
AGAAAACTAAAG
Found at i:74382705 original size:28 final size:27
Alignment explanation
Indices: 74382640--74382832 Score: 206
Period size: 28 Copynumber: 7.3 Consensus size: 27
74382630 ATAGCAATGG
* *
74382640 GCTAAGTGAAATAAGACCATGACA--T
1 GCTAAGTGAAATAAGTCCATGGCATGT
74382665 -CTAAGTGAAATAAGTCCATGGCAATGT
1 GCTAAGTGAAATAAGTCCATGGC-ATGT
* * *
74382692 GCTAAGTAAAATAAGACCGTGGCAATGT
1 GCTAAGTGAAATAAGTCCATGGC-ATGT
*
74382720 GCTAAGTGAAATAAGACCATGGCA--T
1 GCTAAGTGAAATAAGTCCATGGCATGT
74382745 -CTAAGTGAAATAAGTCCATGGCAATGT
1 GCTAAGTGAAATAAGTCCATGGC-ATGT
* *
74382772 GCTAAGTGAAATAAATCCACGGCA--T
1 GCTAAGTGAAATAAGTCCATGGCATGT
*
74382797 -ATAAGTGAAATAAGTCCATGGCATGGT
1 GCTAAGTGAAATAAGTCCATGGCAT-GT
74382824 GCTAAGTGA
1 GCTAAGTGA
74382833 GAAATTTCTT
Statistics
Matches: 142, Mismatches: 14, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
24 61 0.43
25 4 0.03
27 5 0.04
28 72 0.51
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (27 bp):
GCTAAGTGAAATAAGTCCATGGCATGT
Found at i:74382749 original size:52 final size:52
Alignment explanation
Indices: 74382641--74382832 Score: 216
Period size: 52 Copynumber: 3.7 Consensus size: 52
74382631 TAGCAATGGG
* * *
74382641 CTAAGTGAAATAAGACCATGAC-A--T-CTAAGTGAAATAAGTCCATGGCAATGT
1 CTAAGTGAAATAAGTCCATGGCAATGTGCTAAGTGAAATAAGACCATGGC-A--T
* * *
74382692 GCTAAGTAAAATAAGACCGTGGCAATGTGCTAAGTGAAATAAGACCATGGCAT
1 -CTAAGTGAAATAAGTCCATGGCAATGTGCTAAGTGAAATAAGACCATGGCAT
*
74382745 CTAAGTGAAATAAGTCCATGGCAATGTGCTAAGTGAAATAA-ATCCACGGCAT
1 CTAAGTGAAATAAGTCCATGGCAATGTGCTAAGTGAAATAAGA-CCATGGCAT
*
74382797 ATAAGTGAAATAAGTCCATGGC-ATGGTGCTAAGTGA
1 CTAAGTGAAATAAGTCCATGGCAAT-GTGCTAAGTGA
74382833 GAAATTTCTT
Statistics
Matches: 125, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
51 3 0.02
52 97 0.78
53 2 0.02
55 2 0.02
56 21 0.17
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (52 bp):
CTAAGTGAAATAAGTCCATGGCAATGTGCTAAGTGAAATAAGACCATGGCAT
Found at i:74382758 original size:80 final size:80
Alignment explanation
Indices: 74382633--74382785 Score: 279
Period size: 80 Copynumber: 1.9 Consensus size: 80
74382623 TTAGACCATA
74382633 GCAATGGGCTAAGTGAAATAAGACCATGACATCTAAGTGAAATAAGTCCATGGCAATGTGCTAAG
1 GCAATGGGCTAAGTGAAATAAGACCATGACATCTAAGTGAAATAAGTCCATGGCAATGTGCTAAG
74382698 TAAAATAAGACCGTG
66 TAAAATAAGACCGTG
* *
74382713 GCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAATGTGCTAAG
1 GCAATGGGCTAAGTGAAATAAGACCATGACATCTAAGTGAAATAAGTCCATGGCAATGTGCTAAG
*
74382778 TGAAATAA
66 TAAAATAA
74382786 ATCCACGGCA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (80 bp):
GCAATGGGCTAAGTGAAATAAGACCATGACATCTAAGTGAAATAAGTCCATGGCAATGTGCTAAG
TAAAATAAGACCGTG
Found at i:74382832 original size:80 final size:79
Alignment explanation
Indices: 74382642--74382820 Score: 258
Period size: 80 Copynumber: 2.3 Consensus size: 79
74382632 AGCAATGGGC
*
74382642 TAAGTGAAATAAGACCATGACATCTAAGTGAAATAAGTCCATGGCAATGTGCTAAGTAAAATAAG
1 TAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAATGTGCTAAGTAAAATAAG
** *
74382707 ACCGTGGCAATGTGC
66 ACCACGGCAA-GTGA
*
74382722 TAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAATGTGCTAAGTGAAATAA-
1 TAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAATGTGCTAAGTAAAATAAG
74382786 ATCCACGGC-A-T-A
66 A-CCACGGCAAGTGA
*
74382798 TAAGTGAAATAAGTCCATGGCAT
1 TAAGTGAAATAAGACCATGGCAT
74382821 GGTGCTAAGT
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
76 22 0.24
77 1 0.01
79 2 0.02
80 67 0.73
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (79 bp):
TAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAATGTGCTAAGTAAAATAAG
ACCACGGCAAGTGA
Found at i:74382980 original size:50 final size:51
Alignment explanation
Indices: 74382856--74383002 Score: 228
Period size: 50 Copynumber: 2.9 Consensus size: 51
74382846 TGAACCTTAG
* *
74382856 GAATAAAATAACTTTGGACACAAGTGTGGTACTATGTGAAGGCTACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
74382907 GAATAAAATTGCTTTGGACACAAGTGTGGTACTATGTGAA-GCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
74382957 GAATAAAATAGCTTTGG-CTACAAG-GATGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTG-TGGTACTATGTGAAGGCCAC
74383003 CGTGTATCTA
Statistics
Matches: 89, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
49 2 0.02
50 44 0.49
51 43 0.48
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:74390847 original size:51 final size:53
Alignment explanation
Indices: 74390751--74390869 Score: 179
Period size: 51 Copynumber: 2.3 Consensus size: 53
74390741 CCATAATGGT
* *
74390751 AACAGTAACAGTAACAGTAGCGGTACACAGAGTACCTCATCGGAACAAATCTGG
1 AACAGTAACAGTAACAGTAGAGGTA-ACAGAGTACCTCATCGGAACAAATCCGG
* *
74390805 AACAGTAACAGTAACAGTA-AGGT-ACAGAGTACCTCTTCGGAACTAATCCGG
1 AACAGTAACAGTAACAGTAGAGGTAACAGAGTACCTCATCGGAACAAATCCGG
74390856 AACAGTAACAGTAA
1 AACAGTAACAGTAA
74390870 AGCGACACTT
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
51 39 0.64
53 3 0.05
54 19 0.31
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.18
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTAGAGGTAACAGAGTACCTCATCGGAACAAATCCGG
Found at i:74391017 original size:20 final size:20
Alignment explanation
Indices: 74390992--74391031 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
74390982 TCAGTACATA
74390992 TTTCAGCT-AATCATATATAT
1 TTTCAGCTCAAT-ATATATAT
*
74391012 TTTCAGTTCAATATATATAT
1 TTTCAGCTCAATATATATAT
74391032 CAATTCACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTCAGCTCAATATATATAT
Found at i:74392119 original size:16 final size:17
Alignment explanation
Indices: 74392102--74392177 Score: 61
Period size: 20 Copynumber: 4.4 Consensus size: 17
74392092 TATTTATTAT
74392102 ATAAATATCTTATAAT-
1 ATAAATATCTTATAATA
* *
74392118 ATAATTA-CTTA-ATTA
1 ATAAATATCTTATAATA
74392133 ATAAATATCTTTTATAAATA
1 ATAAATATC--TTAT-AATA
74392153 ATAAATATC-TATTAATA
1 ATAAATATCTTA-TAATA
74392170 ATTAAATA
1 A-TAAATA
74392178 CATGTATTAC
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
14 2 0.04
15 10 0.21
16 7 0.15
17 7 0.15
18 10 0.21
20 12 0.25
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAAATATCTTATAATA
Found at i:74392307 original size:16 final size:16
Alignment explanation
Indices: 74392286--74392330 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
74392276 TTATTTAACC
74392286 AATATAAAATAATATT
1 AATATAAAATAATATT
*
74392302 AATATATAATAATATT
1 AATATAAAATAATATT
* *
74392318 TAT-TTAAATAATA
1 AATATAAAATAATA
74392331 AGTAAATACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATATAAAATAATATT
Found at i:74396949 original size:22 final size:21
Alignment explanation
Indices: 74396921--74396987 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
74396911 CATTATATCA
74396921 ATATTTCATGTACCATCAACTC
1 ATATTTCATGTACCATCAA-TC
* *
74396943 ATATTTC-TTTATC-TC-A--
1 ATATTTCATGTACCATCAATC
74396959 ATATTTCATGTACCATCAATTC
1 ATATTTCATGTACCATCAA-TC
74396981 ATATTTC
1 ATATTTC
74396988 TTTATCTCAC
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
16 7 0.20
17 4 0.11
18 2 0.06
19 2 0.06
20 2 0.06
21 4 0.11
22 14 0.40
ACGTcount: A:0.30, C:0.22, G:0.03, T:0.45
Consensus pattern (21 bp):
ATATTTCATGTACCATCAATC
Found at i:74396969 original size:38 final size:38
Alignment explanation
Indices: 74396913--74396996 Score: 150
Period size: 38 Copynumber: 2.2 Consensus size: 38
74396903 AGTTAATTCA
*
74396913 TTATATCAATATTTCATGTACCATCAACTCATATTTCT
1 TTATCTCAATATTTCATGTACCATCAACTCATATTTCT
*
74396951 TTATCTCAATATTTCATGTACCATCAATTCATATTTCT
1 TTATCTCAATATTTCATGTACCATCAACTCATATTTCT
74396989 TTATCTCA
1 TTATCTCA
74396997 CATAATTAGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.30, C:0.21, G:0.02, T:0.46
Consensus pattern (38 bp):
TTATCTCAATATTTCATGTACCATCAACTCATATTTCT
Found at i:74398342 original size:2 final size:2
Alignment explanation
Indices: 74398335--74398407 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
74398325 ATGTGATGGA
74398335 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
74398377 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
74398408 TTCCACGCAC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:74403589 original size:3 final size:3
Alignment explanation
Indices: 74403577--74403609 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
74403567 ACCAAATTTT
74403577 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
74403610 AACGTGCTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:74408733 original size:22 final size:22
Alignment explanation
Indices: 74408691--74408731 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
74408681 GTTAGCATTT
74408691 AATTAATTTTTTAAAATTTTAA
1 AATTAATTTTTTAAAATTTTAA
*
74408713 AATT-ATTTTTTATAATTTT
1 AATTAATTTTTTAAAATTTT
74408732 TATTCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
AATTAATTTTTTAAAATTTTAA
Found at i:74408771 original size:22 final size:21
Alignment explanation
Indices: 74408743--74408807 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
74408733 ATTCTTTTTT
74408743 AATATTTTTAATGATTTTTAAA
1 AATATTTTTAAT-ATTTTTAAA
*
74408765 AATATTTTTATATTTTTTTAAA
1 AATATTTTTA-ATATTTTTAAA
74408787 AA-ATTTTTAA-A-TTTTAAA
1 AATATTTTTAATATTTTTAAA
74408805 AAT
1 AAT
74408808 TAATTAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.23
20 1 0.03
21 7 0.18
22 20 0.51
23 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
AATATTTTTAATATTTTTAAA
Found at i:74408787 original size:21 final size:22
Alignment explanation
Indices: 74408727--74408795 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 22
74408717 ATTTTTTATA
*
74408727 ATTTTTAT-TCTTTTTT--AAT
1 ATTTTTATATATTTTTTAAAAT
*
74408746 ATTTTTA-ATGATTTTTAAAAAT
1 ATTTTTATAT-ATTTTTTAAAAT
*
74408768 ATTTTTATAT-TTTTTTAAAAA
1 ATTTTTATATATTTTTTAAAAT
74408789 ATTTTTA
1 ATTTTTA
74408796 AATTTTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 8 0.20
20 5 0.12
21 16 0.39
22 10 0.24
23 2 0.05
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (22 bp):
ATTTTTATATATTTTTTAAAAT
Found at i:74409885 original size:29 final size:26
Alignment explanation
Indices: 74409852--74409909 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 26
74409842 AAAAAAGTTT
74409852 AATATAAATAATA-ATTTACATATTATAAA
1 AATAT-AATAATATATTT--AT-TTATAAA
*
74409881 AATATTATAATATATTTATTTATAAA
1 AATATAATAATATATTTATTTATAAA
74409907 AAT
1 AAT
74409910 TTATAGTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 10 0.37
27 2 0.07
28 6 0.22
29 9 0.33
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
AATATAATAATATATTTATTTATAAA
Found at i:74409891 original size:25 final size:25
Alignment explanation
Indices: 74409862--74409914 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
74409852 AATATAAATA
*
74409862 ATAATTTACATA-TTATAAAAATATT
1 ATAATATACATATTTATAAAAAT-TT
**
74409887 ATAATATATTTATTTATAAAAATTT
1 ATAATATACATATTTATAAAAATTT
74409912 ATA
1 ATA
74409915 GTCAAACAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATAATATACATATTTATAAAAATTT
Found at i:74416215 original size:18 final size:18
Alignment explanation
Indices: 74416188--74416222 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
74416178 GATAAATCCT
74416188 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
*
74416206 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
74416223 TATATTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:74422538 original size:18 final size:18
Alignment explanation
Indices: 74422515--74422549 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
74422505 TGTTAATATA
74422515 GGAGTAAATCCCTGATTG
1 GGAGTAAATCCCTGATTG
*
74422533 GGAGTAAATCCTTGATT
1 GGAGTAAATCCCTGATT
74422550 AGGATTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (18 bp):
GGAGTAAATCCCTGATTG
Found at i:74428065 original size:18 final size:18
Alignment explanation
Indices: 74428042--74428076 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
74428032 TGTTAATATA
74428042 GGAGTAAATCCCTGATTG
1 GGAGTAAATCCCTGATTG
*
74428060 GGAGTAAATCCTTGATT
1 GGAGTAAATCCCTGATT
74428077 AGGATTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (18 bp):
GGAGTAAATCCCTGATTG
Found at i:74432891 original size:2 final size:2
Alignment explanation
Indices: 74432884--74432925 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
74432874 TTGGAATGAA
74432884 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
74432926 TTAGTACATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:74440671 original size:29 final size:29
Alignment explanation
Indices: 74440627--74440698 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
74440617 TTTTTCTTTT
* *
74440627 TCAGAATAACATGAAAATAAA-ATTATTTA
1 TCAGAATAATATGAAAA-AAATATTAATTA
*
74440656 -CTAGAATAATATGAAAAAAATTTTAATTA
1 TC-AGAATAATATGAAAAAAATATTAATTA
74440685 TCAGAATAATATGA
1 TCAGAATAATATGA
74440699 CCTCTGGGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 4 0.11
29 32 0.86
30 1 0.03
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (29 bp):
TCAGAATAATATGAAAAAAATATTAATTA
Found at i:74440942 original size:23 final size:23
Alignment explanation
Indices: 74440912--74440957 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
74440902 TATAATTTTA
*
74440912 TTTTAAAAATATTT-TTTTTATT
1 TTTTTAAAATATTTATTTTTATT
*
74440934 TTTTTAAAATTTTTATTTTTATT
1 TTTTTAAAATATTTATTTTTATT
74440957 T
1 T
74440958 AAAATGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTAAAATATTTATTTTTATT
Found at i:74440946 original size:19 final size:19
Alignment explanation
Indices: 74440926--74440962 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
74440916 AAAAATATTT
74440926 TTTTTA-TTTT-TTTAAAA
1 TTTTTATTTTTATTTAAAA
74440943 TTTTTATTTTTATTTAAAA
1 TTTTTATTTTTATTTAAAA
74440962 T
1 T
74440963 GTGAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 4 0.22
19 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTATTTTTATTTAAAA
Found at i:74442564 original size:26 final size:27
Alignment explanation
Indices: 74442503--74442565 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
74442493 TTATACACAG
* *
74442503 TTTATATTATTTCAGTAATTAAATTTT
1 TTTATATTATTTCAGTAAATAAATATT
74442530 TTTATATTATTTC-GATAAAT-AATATT
1 TTTATATTATTTCAG-TAAATAAATATT
74442556 TTTATATTAT
1 TTTATATTAT
74442566 CCTGCCCTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 16 0.48
27 17 0.52
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (27 bp):
TTTATATTATTTCAGTAAATAAATATT
Found at i:74446329 original size:41 final size:41
Alignment explanation
Indices: 74446225--74446315 Score: 157
Period size: 41 Copynumber: 2.2 Consensus size: 41
74446215 AATGAACGAC
*
74446225 AAAATCTTT-TACTACATCTATTTTTACAATATCATTTCTTT
1 AAAAT-TTTCTACGACATCTATTTTTACAATATCATTTCTTT
74446266 AAAATTTTCTACGACATCTATTTTTACAATATCATTTCTTT
1 AAAATTTTCTACGACATCTATTTTTACAATATCATTTCTTT
74446307 AAAATTTTC
1 AAAATTTTC
74446316 ACTTTTAGTT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 3 0.06
41 45 0.94
ACGTcount: A:0.33, C:0.16, G:0.01, T:0.49
Consensus pattern (41 bp):
AAAATTTTCTACGACATCTATTTTTACAATATCATTTCTTT
Found at i:74452795 original size:23 final size:21
Alignment explanation
Indices: 74452762--74452803 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
74452752 AAATTTTAAG
74452762 AATTAAAAAAATAAAAATATATA
1 AATT-AAAAAA-AAAAATATATA
*
74452785 AATTAATAAAAAAAATATA
1 AATTAAAAAAAAAAATATA
74452804 AATTTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
AATTAAAAAAAAAAATATATA
Found at i:74453846 original size:5 final size:6
Alignment explanation
Indices: 74453830--74453855 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
74453820 AGATCGGACC
74453830 ATTTTT ATTTTT ATTTTT ATTTTT AT
1 ATTTTT ATTTTT ATTTTT ATTTTT AT
74453856 CGAATTCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:74454846 original size:16 final size:16
Alignment explanation
Indices: 74454825--74454877 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 16
74454815 TTTGCATTGC
74454825 AAACGAAAGAGATGAG
1 AAACGAAAGAGATGAG
*
74454841 AAACGAAGAAGTGATGGAG
1 AAACG-A-AAGAGAT-GAG
74454860 AAAACGAAAGAGAT-AG
1 -AAACGAAAGAGATGAG
74454876 AA
1 AA
74454878 GAGAAAAGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 2 0.06
16 7 0.23
17 1 0.03
18 12 0.39
19 4 0.13
20 5 0.16
ACGTcount: A:0.57, C:0.06, G:0.30, T:0.08
Consensus pattern (16 bp):
AAACGAAAGAGATGAG
Found at i:74455854 original size:71 final size:70
Alignment explanation
Indices: 74455721--74455894 Score: 206
Period size: 71 Copynumber: 2.5 Consensus size: 70
74455711 TTGTGTTAAC
* * ** *
74455721 AATTGAATTTCTAATTTCAAATCCAAGAAATAACCTTAAAATAAATGTAAGAGGATTGAATTCTA
1 AATTGAATTTATATTTTCAAATCCAAGAAATAACCTTAAAATAAATAAAAGAGGATTAAATTCTA
74455786 AAAAT
66 AAAAT
* * * *
74455791 AATTGAATTTGTATTTTCAAATCCAGACTAAAT-TCCTTAAAATAAATAAAAGGGGATTAAATTC
1 AATTGAATTTATATTTTCAAATCCA-A-GAAATAACCTTAAAATAAATAAAAGAGGATTAAATTC
*
74455855 TAATAAT
64 TAAAAAT
* * *
74455862 AATTGAATTTATATTTTTAAATTCAAAAAATAA
1 AATTGAATTTATATTTTCAAATCCAAGAAATAA
74455895 AGAGGTTAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
69 4 0.05
70 24 0.28
71 55 0.63
72 4 0.05
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.35
Consensus pattern (70 bp):
AATTGAATTTATATTTTCAAATCCAAGAAATAACCTTAAAATAAATAAAAGAGGATTAAATTCTA
AAAAT
Found at i:74458635 original size:19 final size:20
Alignment explanation
Indices: 74458611--74458651 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
74458601 TTTTATTTAT
*
74458611 TTAAAAAATTTAAA-AAAAA
1 TTAAAAAATTAAAATAAAAA
*
74458630 TTAAAAAGTTAAAATAAAAA
1 TTAAAAAATTAAAATAAAAA
74458650 TT
1 TT
74458652 TTACAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
TTAAAAAATTAAAATAAAAA
Found at i:74459625 original size:11 final size:11
Alignment explanation
Indices: 74459611--74459650 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
74459601 GTTTTCTCCC
74459611 TATTTTGCTAT
1 TATTTTGCTAT
*
74459622 TATTTTACTAT
1 TATTTTGCTAT
* *
74459633 TATGTTGCTAC
1 TATTTTGCTAT
74459644 TATTTTG
1 TATTTTG
74459651 TTGTTGTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:74459895 original size:12 final size:12
Alignment explanation
Indices: 74459874--74459907 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
74459864 TATATATTTT
*
74459874 AAAATTATATAA
1 AAAATAATATAA
74459886 AAAATAATATAA
1 AAAATAATATAA
*
74459898 AAATTAATAT
1 AAAATAATAT
74459908 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:74462686 original size:19 final size:20
Alignment explanation
Indices: 74462662--74462699 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
74462652 TTTCTAAAAT
74462662 AGAATATCT-TGTAATTATA
1 AGAATATCTATGTAATTATA
*
74462681 AGAATATGTATGTAATTAT
1 AGAATATCTATGTAATTAT
74462700 CATTTAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (20 bp):
AGAATATCTATGTAATTATA
Found at i:74467295 original size:21 final size:21
Alignment explanation
Indices: 74467271--74467330 Score: 50
Period size: 21 Copynumber: 2.8 Consensus size: 21
74467261 TATTCCCTTC
74467271 AAAAGTCTATCAAATTTC-ATT
1 AAAAGTCTATCAAATTTCTA-T
* * * *
74467292 AAAATTTTCTCAAAATTCTAT
1 AAAAGTCTATCAAATTTCTAT
*
74467313 CAAAGTTCTATCAAATTT
1 AAAAG-TCTATCAAATTT
74467331 GTTTGTTTAA
Statistics
Matches: 28, Mismatches: 9, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (21 bp):
AAAAGTCTATCAAATTTCTAT
Found at i:74467315 original size:11 final size:11
Alignment explanation
Indices: 74467269--74467327 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
74467259 AATATTCCCT
*
74467269 TCAAAAGTCTA
1 TCAAAATTCTA
*
74467280 TCAAATTTC-A
1 TCAAAATTCTA
* * *
74467290 TTAAAATTTTC
1 TCAAAATTCTA
74467301 TCAAAATTCTA
1 TCAAAATTCTA
*
74467312 TCAAAGTTCTA
1 TCAAAATTCTA
74467323 TCAAA
1 TCAAA
74467328 TTTGTTTGTT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
10 7 0.19
11 30 0.81
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.37
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:74467521 original size:48 final size:47
Alignment explanation
Indices: 74467450--74467583 Score: 180
Period size: 48 Copynumber: 2.8 Consensus size: 47
74467440 AGTGATAATT
* *
74467450 TTAAATTTCAAAACTATTCGATATTTTTTTCATTTATGCAAATT-TAA
1 TTAAATTTCAATACTATTTGATATTTTTTTCATTTATGC-AATTATAA
*
74467497 TTAAATTTGCAATACTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTT-CAATACTATTTGATATTTTTTTCATTTATGCAATTATAA
** *
74467545 TTACAATTTCAATACTGCTTGATTTTTTTTTCATTTATG
1 TTA-AATTTCAATACTATTTGATATTTTTTTCATTTATG
74467584 ATGTTTGCAT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
47 12 0.16
48 60 0.78
49 5 0.06
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.51
Consensus pattern (47 bp):
TTAAATTTCAATACTATTTGATATTTTTTTCATTTATGCAATTATAA
Found at i:74468604 original size:14 final size:15
Alignment explanation
Indices: 74468572--74468604 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
74468562 TTCATATTCA
74468572 GTATTTAGTATTTAT
1 GTATTTAGTATTTAT
74468587 -TATTTAGTA-TTAT
1 GTATTTAGTATTTAT
74468600 GTATT
1 GTATT
74468605 ATGTTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (15 bp):
GTATTTAGTATTTAT
Found at i:74472978 original size:126 final size:126
Alignment explanation
Indices: 74472678--74473183 Score: 612
Period size: 126 Copynumber: 4.0 Consensus size: 126
74472668 ATTTATAACC
* * * *
74472678 TTATTTTTCTATGAACTACTGTAGCAAAA-A-AAGTCCACGTGGGAGCTTTTTTTTC-GAAATTT
1 TTATTTTTCTACGAACTACTGTAGCAAAAGAGCA-TCCACGTGGGAGC--TTTTTCCAAAAATTT
* * * * * * * *
74472740 TCCTGATAGTGCATCATCCTTGAAGCGTTTTCAACAC--TTTGTTCAGAAACGTCTA-TTAAAA
63 TGCTGACAATGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAA
* * * * * *
74472801 TTATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGAGAGTTTTTTACAGAAATTTTAC
1 TTATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCCAAAAATTTTGC
* * *
74472866 TGACAATGCATCCTACTTGAAGCTTTTTCGACACTATTTGTTCAGAAATGTCTACTCAGAA
66 TGACAATGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAA
** * *
74472927 TTATTTTTCTATAAATTATTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCCAAAAATTTTGC
1 TTATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCCAAAAATTTTGC
*
74472992 TCACAATGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAA
66 TGACAATGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAA
* * *
74473053 TTATTTTTCTACGAACTACTGTAACAAAAGAGCGTCCATGT-GGAGCTTTTTCCAAAAATTTTGC
1 TTATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCCAAAAATTTTGC
* * * * * *
74473117 TGACAGTGCATTCTGCTTAAATCGTTTTTCGACACTATTTGTTCAGAAACGTTTATTCAGAA
66 TGACAATGCATCCTGCTTGAAGCG-TTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAA
74473179 TTATT
1 TTATT
74473184 CTTGCAAAAA
Statistics
Matches: 332, Mismatches: 44, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
122 6 0.02
123 65 0.20
124 12 0.04
125 59 0.18
126 190 0.57
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.37
Consensus pattern (126 bp):
TTATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCCAAAAATTTTGC
TGACAATGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAA
Found at i:74473319 original size:59 final size:62
Alignment explanation
Indices: 74473240--74473384 Score: 145
Period size: 66 Copynumber: 2.3 Consensus size: 62
74473230 CATGTTTTTT
* * *
74473240 TAATACCCTAAACACAAATT-TATTTAA-A-AAAACTAA-ACTCTAATTTAATGAATTAACCC
1 TAATACCCTAAATACTAATTATATTTAATATAAAAATAATACT-TAATTTAATGAATTAACCC
* *
74473299 TAATACCCTAAATTCTAATTTAGTATTTAATATTTAAAAATAATAGTTAATTTAATGAATTAACC
1 TAATACCCTAAATACTAA-TTA-TATTTAATA--TAAAAATAATACTTAATTTAATGAATTAACC
74473364 C
62 C
* * *
74473365 TAAAATCCTAAATCCTAATT
1 TAATACCCTAAATACTAATT
74473385 CAATTATTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
59 15 0.21
60 2 0.03
62 7 0.10
63 1 0.01
65 2 0.03
66 41 0.59
67 2 0.03
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (62 bp):
TAATACCCTAAATACTAATTATATTTAATATAAAAATAATACTTAATTTAATGAATTAACCC
Found at i:74473760 original size:38 final size:39
Alignment explanation
Indices: 74473718--74473796 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 39
74473708 ATTATGTATC
*
74473718 AATTAA-CCTTAAATTTAATCAATTAACCTTAA-ACCCTA
1 AATTAATCCTT-AATTTAATCAATTAACCCTAATACCCTA
*
74473756 AATTAATTCTTAATTTAATCAATTAACCCTAATACCCTA
1 AATTAATCCTTAATTTAATCAATTAACCCTAATACCCTA
74473795 AA
1 AA
74473797 CTCTAATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 26 0.70
39 11 0.30
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.35
Consensus pattern (39 bp):
AATTAATCCTTAATTTAATCAATTAACCCTAATACCCTA
Found at i:74475150 original size:7 final size:7
Alignment explanation
Indices: 74475138--74475169 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
74475128 AAGTACCTAG
74475138 AATAAAA
1 AATAAAA
74475145 AATAAAA
1 AATAAAA
74475152 AATAAAA
1 AATAAAA
*
74475159 ACTAAAA
1 AATAAAA
74475166 AATA
1 AATA
74475170 TATCATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (7 bp):
AATAAAA
Found at i:74479577 original size:15 final size:16
Alignment explanation
Indices: 74479551--74479584 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
74479541 TTTAGCTCTG
*
74479551 TTTTCTTTTTTTTTTC
1 TTTTCTTTTTTTTTCC
74479567 TTTTC-TTTTTTTTCC
1 TTTTCTTTTTTTTTCC
74479582 TTT
1 TTT
74479585 CTACTGAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTCTTTTTTTTTCC
Found at i:74480028 original size:22 final size:22
Alignment explanation
Indices: 74480003--74480075 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
74479993 TTTTAGTATC
74480003 ATTTCGTTATTATATTATTACT
1 ATTTCGTTATTATATTATTACT
* * * *
74480025 ATTTTATTGTTATTGTTTTAGTA-T
1 A--TT-TCGTTATTATATTATTACT
74480049 CATTTCGTTATTATATTATTACT
1 -ATTTCGTTATTATATTATTACT
74480072 ATTT
1 ATTT
74480076 TATTGTTATT
Statistics
Matches: 38, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
22 18 0.47
23 3 0.08
24 3 0.08
25 14 0.37
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.62
Consensus pattern (22 bp):
ATTTCGTTATTATATTATTACT
Found at i:74480046 original size:47 final size:47
Alignment explanation
Indices: 74479989--74480090 Score: 204
Period size: 47 Copynumber: 2.2 Consensus size: 47
74479979 TTGTTTTATC
74479989 ATTGTTTTAGTATCATTTCGTTATTATATTATTACTATTTTATTGTT
1 ATTGTTTTAGTATCATTTCGTTATTATATTATTACTATTTTATTGTT
74480036 ATTGTTTTAGTATCATTTCGTTATTATATTATTACTATTTTATTGTT
1 ATTGTTTTAGTATCATTTCGTTATTATATTATTACTATTTTATTGTT
74480083 ATTGTTTT
1 ATTGTTTT
74480091 GATATTGTAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.23, C:0.06, G:0.09, T:0.63
Consensus pattern (47 bp):
ATTGTTTTAGTATCATTTCGTTATTATATTATTACTATTTTATTGTT
Found at i:74481577 original size:17 final size:19
Alignment explanation
Indices: 74481540--74481577 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
74481530 TGTTATATTT
*
74481540 TTTTGAAGATGTTTATGTA
1 TTTTGAAGATGTTTATATA
74481559 TTTT-AAGAT-TTTATATA
1 TTTTGAAGATGTTTATATA
74481576 TT
1 TT
74481578 ATTATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 5 0.28
19 4 0.22
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (19 bp):
TTTTGAAGATGTTTATATA
Found at i:74481627 original size:17 final size:17
Alignment explanation
Indices: 74481595--74481637 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
74481585 ATTGTCAACA
**
74481595 ATATTTTTTATTTATAT
1 ATATTTTTTAAGTATAT
74481612 ATATTTTTTAAGTATAT
1 ATATTTTTTAAGTATAT
74481629 -TATTATTTT
1 ATATT-TTTT
74481638 GAAAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
ATATTTTTTAAGTATAT
Found at i:74482508 original size:21 final size:21
Alignment explanation
Indices: 74482482--74482525 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
74482472 TCGTACTAGA
74482482 ATCAAATTGTAAACACAGTGT
1 ATCAAATTGTAAACACAGTGT
74482503 ATCAAATTGTAAACACAGTGT
1 ATCAAATTGTAAACACAGTGT
74482524 AT
1 AT
74482526 ACGTACCGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (21 bp):
ATCAAATTGTAAACACAGTGT
Found at i:74487134 original size:24 final size:24
Alignment explanation
Indices: 74487066--74487138 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
74487056 GTTATGTAGA
* *
74487066 TAAAAAATGTTAACATTTTAAAAT
1 TAAAAAATATTCACATTTTAAAAT
*** *
74487090 T-AATTTTACTCA-ATTTTAAAAT
1 TAAAAAATATTCACATTTTAAAAT
74487112 TAAAAAATATTCACATTTTAAAAT
1 TAAAAAATATTCACATTTTAAAAT
74487136 TAA
1 TAA
74487139 TTTACTTTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
22 11 0.30
23 12 0.32
24 14 0.38
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (24 bp):
TAAAAAATATTCACATTTTAAAAT
Found at i:74492488 original size:21 final size:21
Alignment explanation
Indices: 74492462--74492503 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
74492452 GTTTGCTTAG
74492462 AATGTATCTGAGTTAGCCTAA
1 AATGTATCTGAGTTAGCCTAA
74492483 AATGTATCTGAGTTAGCCTAA
1 AATGTATCTGAGTTAGCCTAA
74492504 CTCTCACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
AATGTATCTGAGTTAGCCTAA
Found at i:74499102 original size:2 final size:2
Alignment explanation
Indices: 74499095--74499125 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
74499085 TAACATCAAA
74499095 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
74499126 ATAGAATTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:74504372 original size:13 final size:14
Alignment explanation
Indices: 74504354--74504387 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
74504344 TCAAGTTCGT
74504354 TTAATTGAA-AAAA
1 TTAATTGAACAAAA
74504367 TTAATTGAATCAAAA
1 TTAATTGAA-CAAAA
74504382 TTAATT
1 TTAATT
74504388 CGATTTGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
15 10 0.53
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (14 bp):
TTAATTGAACAAAA
Found at i:74505203 original size:31 final size:32
Alignment explanation
Indices: 74505168--74505246 Score: 124
Period size: 31 Copynumber: 2.5 Consensus size: 32
74505158 AAGATCAGTA
74505168 AAAAGATTCGATTAATACAATATTTACACT-T
1 AAAAGATTCGATTAATACAATATTTACACTAT
*
74505199 AAAAGATTAGATTAATACAATATTTACACTAT
1 AAAAGATTCGATTAATACAATATTTACACTAT
*
74505231 AAAATGATTCAATTAA
1 AAAA-GATTCGATTAA
74505247 AATGTTTCTA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 29 0.67
32 5 0.12
33 9 0.21
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.34
Consensus pattern (32 bp):
AAAAGATTCGATTAATACAATATTTACACTAT
Found at i:74514075 original size:2 final size:2
Alignment explanation
Indices: 74514035--74514063 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
74514025 TTCCAGTTGC
74514035 TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
74514064 AGGAAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:74516061 original size:30 final size:30
Alignment explanation
Indices: 74516027--74516095 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 30
74516017 TCATGTTGGA
74516027 GCTTAAACT-AGCAATTGTTCCCATATTGAG
1 GCTTAAACTAAGCAATTGTTCCCATATT-AG
**
74516057 GCTTAAGTTAAGCAATTGTTCCCATATTAG
1 GCTTAAACTAAGCAATTGTTCCCATATTAG
*
74516087 GCTTGAACT
1 GCTTAAACT
74516096 TTAAGGTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 15 0.45
31 18 0.55
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (30 bp):
GCTTAAACTAAGCAATTGTTCCCATATTAG
Found at i:74521512 original size:23 final size:21
Alignment explanation
Indices: 74521461--74521512 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
74521451 TTTAATAAGT
74521461 TAATATTTACTGTTTGAAAAA
1 TAATATTTACTGTTTGAAAAA
74521482 T-ATCATTTACTGTTTGATATAAA
1 TAAT-ATTTACTGTTTGA-A-AAA
74521505 TAATATTT
1 TAATATTT
74521513 TTATCGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 2 0.07
21 14 0.52
22 1 0.04
23 8 0.30
24 2 0.07
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (21 bp):
TAATATTTACTGTTTGAAAAA
Found at i:74521724 original size:25 final size:25
Alignment explanation
Indices: 74521696--74521745 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
74521686 GATCTATCAG
74521696 CTTTCATAGTTTTAATAAATTTAAC
1 CTTTCATAGTTTTAATAAATTTAAC
74521721 CTTTCATAGTTTTAATAAATTTAAC
1 CTTTCATAGTTTTAATAAATTTAAC
74521746 TTATTGATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.48
Consensus pattern (25 bp):
CTTTCATAGTTTTAATAAATTTAAC
Found at i:74524306 original size:40 final size:40
Alignment explanation
Indices: 74524203--74524337 Score: 218
Period size: 40 Copynumber: 3.4 Consensus size: 40
74524193 GACTTATAGT
* *
74524203 CCGCAGGCTTTGTGCTGGCAATAGATATCCAGGTTAAATC
1 CCGCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATC
* *
74524243 CCACAAGC-TTGTGCTGGTAATAGATATCCGGGTTAAATC
1 CCGCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATC
*
74524282 CCGCAGGCTTTGTGCTGGTAATAGATATCTGGGTTAAATC
1 CCGCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATC
74524322 CCGCAGGCTTTGTGCT
1 CCGCAGGCTTTGTGCT
74524338 AGAAATTGGA
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 35 0.40
40 52 0.60
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
CCGCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATC
Found at i:74526896 original size:16 final size:16
Alignment explanation
Indices: 74526878--74526942 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 16
74526868 ATTAATCTTT
*
74526878 TAAAAATTAAAAATTT
1 TAAAAATTAAAAATTA
74526894 TAAAAAATATAAAAATTA
1 T-AAAAAT-TAAAAATTA
* * *
74526912 GAAATGATTAAAAAGTA
1 TAAA-AATTAAAAATTA
74526929 TAAAAATTATAAAA
1 TAAAAATTA-AAAA
74526943 ATATTTTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
16 5 0.13
17 24 0.62
18 10 0.26
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (16 bp):
TAAAAATTAAAAATTA
Found at i:74526922 original size:26 final size:25
Alignment explanation
Indices: 74526878--74526947 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 25
74526868 ATTAATCTTT
*
74526878 TAAAAATTAAAAATTTTAAAAAATA
1 TAAAAATTAAAAATATTAAAAAATA
* *
74526903 TAAAAATTAGAAATGATTAAAAAGTA
1 TAAAAATTAAAAAT-ATTAAAAAATA
74526929 TAAAAATTATAAAAATATT
1 TAAAAA-T-TAAAAATATT
74526948 TTTAATATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 13 0.34
26 15 0.39
27 4 0.11
28 6 0.16
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (25 bp):
TAAAAATTAAAAATATTAAAAAATA
Found at i:74526944 original size:9 final size:9
Alignment explanation
Indices: 74526885--74526944 Score: 52
Period size: 9 Copynumber: 6.8 Consensus size: 9
74526875 TTTTAAAAAT
*
74526885 TAAAAATTT
1 TAAAAATTA
*
74526894 TAAAAAATA
1 TAAAAATTA
74526903 TAAAAA-T-
1 TAAAAATTA
* *
74526910 TAGAAATGA
1 TAAAAATTA
*
74526919 TTAAAAAGTA
1 -TAAAAATTA
74526929 TAAAAATTA
1 TAAAAATTA
74526938 TAAAAAT
1 TAAAAAT
74526945 ATTTTTAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
7 5 0.12
8 1 0.03
9 28 0.70
10 6 0.15
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:74527652 original size:8 final size:8
Alignment explanation
Indices: 74527631--74527660 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
74527621 ATAATATTTT
74527631 AATTTAAA
1 AATTTAAA
74527639 ATATTTAAA
1 A-ATTTAAA
74527648 AATTTAAA
1 AATTTAAA
74527656 AATTT
1 AATTT
74527661 GATTCATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
AATTTAAA
Found at i:74530242 original size:24 final size:24
Alignment explanation
Indices: 74530215--74530266 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
74530205 TTAGCAAGTC
*
74530215 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
74530239 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
74530263 AAAT
1 AAAT
74530267 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:74531222 original size:23 final size:23
Alignment explanation
Indices: 74531192--74531238 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
74531182 TACTTCAATA
74531192 GCTAACATTAGCCATATCATTTG
1 GCTAACATTAGCCATATCATTTG
74531215 GCTAACATTAGCCATATCATTTG
1 GCTAACATTAGCCATATCATTTG
74531238 G
1 G
74531239 ACATGCTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (23 bp):
GCTAACATTAGCCATATCATTTG
Found at i:74531703 original size:23 final size:23
Alignment explanation
Indices: 74531645--74531718 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
74531635 ATAAGTGCCA
* *
74531645 CACTGATATGTAGTCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
*
74531668 CACTG-AATGTAGCCAAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
74531690 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
74531713 CACTGA
1 CACTGA
74531719 TCAATAACAC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 19 0.41
23 27 0.59
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:74531819 original size:8 final size:8
Alignment explanation
Indices: 74531806--74531834 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
74531796 ACCCGGGACT
74531806 CACTGTAA
1 CACTGTAA
74531814 CACTGTAA
1 CACTGTAA
74531822 CACTGTAA
1 CACTGTAA
74531830 CACTG
1 CACTG
74531835 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:74538548 original size:23 final size:23
Alignment explanation
Indices: 74538522--74538620 Score: 180
Period size: 23 Copynumber: 4.3 Consensus size: 23
74538512 ATAAGTGCCA
74538522 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
74538545 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
74538568 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
74538591 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
74538614 CACTGAT
1 CACTGAT
74538621 CAATAACACT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 74 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:74538720 original size:8 final size:8
Alignment explanation
Indices: 74538707--74538735 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
74538697 ACCCGGGACT
74538707 CACTGTAA
1 CACTGTAA
74538715 CACTGTAA
1 CACTGTAA
74538723 CACTGTAA
1 CACTGTAA
74538731 CACTG
1 CACTG
74538736 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:74541245 original size:24 final size:24
Alignment explanation
Indices: 74541218--74541269 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
74541208 TTAGCAAGTC
*
74541218 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
74541242 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
74541266 AAAT
1 AAAT
74541270 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:74544971 original size:18 final size:18
Alignment explanation
Indices: 74544948--74544989 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
74544938 TATAAGCCTC
* *
74544948 AAATATGAACAGTAAAAT
1 AAATATGAACAATAAAAA
*
74544966 AAATATGAAGAATAAAAA
1 AAATATGAACAATAAAAA
74544984 AAATAT
1 AAATAT
74544990 AGTATAGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.21
Consensus pattern (18 bp):
AAATATGAACAATAAAAA
Found at i:74545895 original size:13 final size:14
Alignment explanation
Indices: 74545877--74545909 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
74545867 GACTTTATCA
74545877 TTATTTATT-TTAT
1 TTATTTATTATTAT
74545890 TTATTTATTATTAT
1 TTATTTATTATTAT
*
74545904 TAATTT
1 TTATTT
74545910 TAAAAATCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTATTTATTATTAT
Found at i:74545989 original size:25 final size:25
Alignment explanation
Indices: 74545926--74545990 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 25
74545916 TCTGAAATAA
*
74545926 ATATTTGAAATGTTTTATAATATAT
1 ATATTTGAAATATTTTATAATATAT
* **
74545951 ATTTTTCTAA-ATTTTA-AATATAT
1 ATATTTGAAATATTTTATAATATAT
74545974 ATATTTGAAATTATTTT
1 ATATTTGAAA-TATTTT
74545991 TGAAATTTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
23 14 0.45
24 5 0.16
25 12 0.39
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (25 bp):
ATATTTGAAATATTTTATAATATAT
Found at i:74546023 original size:33 final size:32
Alignment explanation
Indices: 74545950--74546045 Score: 111
Period size: 34 Copynumber: 2.8 Consensus size: 32
74545940 TTATAATATA
* *
74545950 TATTTTTCTAAATTTTAAATATATATATTTGAAAT
1 TATTTTT-AAAATTTTAAATAT-TAT-TTTAAAAT
*
74545985 TATTTTTGAAATTTTAAATATTAGTTTTAAAAT
1 TATTTTTAAAATTTTAAATATTA-TTTTAAAAT
*
74546018 TATTTTTTAAAATTCTAAATATTATTTT
1 TA-TTTTTAAAATTTTAAATATTATTTT
74546046 TTAAATATTA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
33 15 0.27
34 33 0.60
35 7 0.13
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (32 bp):
TATTTTTAAAATTTTAAATATTATTTTAAAAT
Found at i:74546042 original size:22 final size:22
Alignment explanation
Indices: 74546011--74546075 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 22
74546001 AATATTAGTT
74546011 TTAAA-ATTATTTTTTAAAAT-
1 TTAAATATTATTTTTTAAAATA
74546031 TCTAAATATTATTTTTT-AAATA
1 T-TAAATATTATTTTTTAAAATA
74546053 TTAAATA-TATTTTTTAATAATA
1 TTAAATATTATTTTTTAA-AATA
74546075 T
1 T
74546076 AAAACATTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
20 9 0.22
21 15 0.38
22 16 0.40
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TTAAATATTATTTTTTAAAATA
Found at i:74546063 original size:20 final size:21
Alignment explanation
Indices: 74546014--74546069 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
74546004 ATTAGTTTTA
74546014 AAAT-TATTTTTTAAAATTCT
1 AAATATATTTTTTAAAATTCT
74546034 AAATATTATTTTTT-AAATAT-T
1 AAATA-TATTTTTTAAAAT-TCT
74546055 AAATATATTTTTTAA
1 AAATATATTTTTTAA
74546070 TAATATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
20 12 0.38
21 11 0.34
22 9 0.28
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
AAATATATTTTTTAAAATTCT
Found at i:74546078 original size:21 final size:20
Alignment explanation
Indices: 74546014--74546078 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 20
74546004 ATTAGTTTTA
*
74546014 AAAT-TATTTTTTAAAATTCT
1 AAATATATTTTTTAAAA-TAT
74546034 AAATATTATTTTTT-AAATATT
1 AAATA-TATTTTTTAAAATA-T
74546055 AAATATATTTTTTAATAATAT
1 AAATATATTTTTTAA-AATAT
74546076 AAA
1 AAA
74546079 ACATTTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
20 13 0.33
21 14 0.36
22 12 0.31
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
AAATATATTTTTTAAAATAT
Found at i:74546260 original size:20 final size:20
Alignment explanation
Indices: 74546217--74546260 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
74546207 TATTTAAAAG
* * *
74546217 TTAAAAAAATAATATTTTAT
1 TTAAAAAAATAAAATTTGAA
*
74546237 TTAAAAAAGTAAAATTTGAA
1 TTAAAAAAATAAAATTTGAA
74546257 TTAA
1 TTAA
74546261 TTTGAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
TTAAAAAAATAAAATTTGAA
Found at i:74546298 original size:19 final size:19
Alignment explanation
Indices: 74546276--74546312 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
74546266 AAAAAAATTG
74546276 TTAAAAA-AAGATTTATTTT
1 TTAAAAATAA-ATTTATTTT
74546295 TTAAAAATAAATTTATTT
1 TTAAAAATAAATTTATTT
74546313 AAAAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
TTAAAAATAAATTTATTTT
Found at i:74546313 original size:16 final size:16
Alignment explanation
Indices: 74546290--74546337 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
74546280 AAAAAGATTT
74546290 ATTT-TTTAAAAATAA
1 ATTTATTTAAAAATAA
*
74546305 ATTTATTTAAAAATAT
1 ATTTATTTAAAAATAA
*
74546321 ATATA-TTAAAAAGTAA
1 ATTTATTTAAAAA-TAA
74546337 A
1 A
74546338 AATCTAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.39
16 17 0.61
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (16 bp):
ATTTATTTAAAAATAA
Found at i:74546350 original size:20 final size:20
Alignment explanation
Indices: 74546312--74546371 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
74546302 TAAATTTATT
74546312 TAAAAATATATATATTAAAAAG
1 TAAAAATATA-A-ATTAAAAAG
* *
74546334 TAAAAATCTAAATTAAAAAT
1 TAAAAATATAAATTAAAAAG
*
74546354 TAAAAATATATATTAAAA
1 TAAAAATATAAATTAAAA
74546372 TTTTATATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 24 0.71
21 1 0.03
22 9 0.26
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
TAAAAATATAAATTAAAAAG
Found at i:74546481 original size:21 final size:21
Alignment explanation
Indices: 74546443--74546531 Score: 54
Period size: 21 Copynumber: 3.9 Consensus size: 21
74546433 CCACCAAATA
**
74546443 AAATATTAATTTTTAAAATTTT
1 AAAT-TTAATTTAAAAAATTTT
74546465 AAATTTAATTTAAAAAATGTTT
1 AAATTTAATTTAAAAAAT-TTT
* * *
74546487 GAATAT-CTTTAAAATTAATTTT
1 AAATTTAATTTAAAA--AATTTT
74546509 AAAATTAATAATTTATAAAAATT
1 -AAATT--TAATTTA-AAAAATT
74546532 ATATTTAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
21 19 0.37
22 14 0.27
23 6 0.12
25 5 0.10
26 4 0.08
27 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (21 bp):
AAATTTAATTTAAAAAATTTT
Found at i:74546635 original size:14 final size:15
Alignment explanation
Indices: 74546618--74546700 Score: 64
Period size: 14 Copynumber: 5.3 Consensus size: 15
74546608 TATATGTTAA
74546618 ATAATTTAAAA-ATT
1 ATAATTTAAAATATT
74546632 ATAATTTAAAATATT
1 ATAATTTAAAATATT
74546647 ATAAAATAAATTAAAAATATTT
1 AT--AAT---TT-AAAATA-TT
*
74546669 AAAATTTAAAATA-T
1 ATAATTTAAAATATT
*
74546683 A-CATTTAAAATATT
1 ATAATTTAAAATATT
74546697 ATAA
1 ATAA
74546701 AACTAATAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 19
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.18
14 15 0.27
15 6 0.11
16 6 0.11
17 5 0.09
20 5 0.09
21 6 0.11
22 3 0.05
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAATTTAAAATATT
Found at i:74546663 original size:21 final size:20
Alignment explanation
Indices: 74546634--74546673 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
74546624 TAAAAATTAT
*
74546634 AATTTAAAATATTATAAAATA
1 AATTAAAAATATT-TAAAATA
74546655 AATTAAAAATATTTAAAAT
1 AATTAAAAATATTTAAAAT
74546674 TTAAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTAAAAATATTTAAAATA
Found at i:74546671 original size:30 final size:29
Alignment explanation
Indices: 74546635--74546702 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
74546625 AAAAATTATA
74546635 ATTTAAAATATTATAAA-ATAAATTAAAAAT
1 ATTTAAAAT-TTA-AAATATAAATTAAAAAT
* *
74546665 ATTTAAAATTTAAAATATACATTTAAAAT
1 ATTTAAAATTTAAAATATAAATTAAAAAT
74546694 ATTATAAAA
1 ATT-TAAAA
74546703 CTAATAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 3 0.09
29 17 0.50
30 14 0.41
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (29 bp):
ATTTAAAATTTAAAATATAAATTAAAAAT
Found at i:74546772 original size:133 final size:131
Alignment explanation
Indices: 74546532--74546773 Score: 337
Period size: 133 Copynumber: 1.8 Consensus size: 131
74546522 TATAAAAATT
*
74546532 ATATTTAAAAATTTAAAAATATTTAAAAAATTATAAAACAAATAATAAATTTGAAAGGTCATATC
1 ATATTTAAAAATTTAAAAATATTTAAAAAATTATAAAACAAATAATAAATTTGAAAGGTCATAAC
* *
74546597 TTTAAAAATAATATATGTTAAATAATTTAAAAATTATAATTTAAAATATTATAAAATAAATTAAA
66 TTTAAAAATAAAATATGTTAAATAATTTAAAAAATATAATTTAAAATATTATAAAATAAATTAAA
74546662 A
131 A
* * *
74546663 ATATTT-AAAATTTAAAATATACATTTAAAATATTATAAAACTAATAATAAATTTGAACGGTCAT
1 ATATTTAAAAATTTAAAA-AT--ATTTAAAAAATTATAAAACAAATAATAAATTTGAAAGGTCAT
* * *
74546727 AACTTTAAAATATTAAAATATTTTATATTA-TTAAAAAATAT-ATTTAA
63 AACTTTAAAA-A-TAAAATATGTTAAATAATTTAAAAAATATAATTTAA
74546774 TATTTTAAAA
Statistics
Matches: 97, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
130 11 0.11
131 8 0.08
133 54 0.56
134 11 0.11
135 13 0.13
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (131 bp):
ATATTTAAAAATTTAAAAATATTTAAAAAATTATAAAACAAATAATAAATTTGAAAGGTCATAAC
TTTAAAAATAAAATATGTTAAATAATTTAAAAAATATAATTTAAAATATTATAAAATAAATTAAA
A
Found at i:74546781 original size:21 final size:21
Alignment explanation
Indices: 74546741--74546812 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
74546731 TTAAAATATT
74546741 AAAATAT-TTT-ATATTATTAA
1 AAAATATATTTAATATT-TTAA
74546761 AAAATATATTTAATATTTT-A
1 AAAATATATTTAATATTTTAA
* * *
74546781 AAACTAATATTTAAAATTTAAA
1 AAAAT-ATATTTAATATTTTAA
74546803 AAAATA-ATTT
1 AAAATATATTT
74546813 CAAAAATATA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
20 16 0.36
21 18 0.41
22 10 0.23
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAATATATTTAATATTTTAA
Done.