Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_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: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 42 of 49
Found at i:8678535 original size:18 final size:17
Alignment explanation
Indices: 8678481--8678535 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
8678471 CATTATTGAT
* *
8678481 TGAACTACATGTTTTAA
1 TGAACTAGATGCTTTAA
*
8678498 TGAACTATATGCTTTAAA
1 TGAACTAGATGCTTT-AA
*
8678516 TGAAGTAGATGCCTTTAA
1 TGAACTAGATG-CTTTAA
8678534 TG
1 TG
8678536 GACAGCATGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 13 0.41
18 15 0.47
19 4 0.12
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (17 bp):
TGAACTAGATGCTTTAA
Found at i:8683892 original size:15 final size:15
Alignment explanation
Indices: 8683872--8683904 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
8683862 TGGGGAAGTT
*
8683872 GACCCGGTTTGACCC
1 GACCCGGTTCGACCC
8683887 GACCCGGTTCGACCC
1 GACCCGGTTCGACCC
8683902 GAC
1 GAC
8683905 TGTTGACCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.42, G:0.27, T:0.15
Consensus pattern (15 bp):
GACCCGGTTCGACCC
Found at i:8683914 original size:12 final size:13
Alignment explanation
Indices: 8683880--8683921 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
8683870 TTGACCCGGT
*
8683880 TTGACCCGACCCGG
1 TTGACCCGA-CCTG
8683894 TTCGACCCGA-CTG
1 TT-GACCCGACCTG
8683907 TTGACCCGACCTG
1 TTGACCCGACCTG
8683920 TT
1 TT
8683922 AACCTGACGC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 7 0.28
13 9 0.36
14 2 0.08
15 7 0.28
ACGTcount: A:0.14, C:0.38, G:0.24, T:0.24
Consensus pattern (13 bp):
TTGACCCGACCTG
Found at i:8686377 original size:49 final size:49
Alignment explanation
Indices: 8686323--8686421 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
8686313 GCTATCTGAT
8686323 TATTGGTTTTCAATGGTATATGATTACAATGATTAAGGATTTATGGGAA
1 TATTGGTTTTCAATGGTATATGATTACAATGATTAAGGATTTATGGGAA
8686372 TATTGGTTTTCAATGGTATATGATTACAATGATTAAGGATTTATGGGAA
1 TATTGGTTTTCAATGGTATATGATTACAATGATTAAGGATTTATGGGAA
8686421 T
1 T
8686422 TATGTCATGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.32, C:0.04, G:0.22, T:0.41
Consensus pattern (49 bp):
TATTGGTTTTCAATGGTATATGATTACAATGATTAAGGATTTATGGGAA
Found at i:8721714 original size:23 final size:23
Alignment explanation
Indices: 8721688--8721734 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
8721678 TCTCTTAATA
* *
8721688 ATATTTTTAATATTTTATTTTTT
1 ATATTTTTAATATTTGAATTTTT
*
8721711 ATATTTTTAGTATTTGAATTTTT
1 ATATTTTTAATATTTGAATTTTT
8721734 A
1 A
8721735 AATAACTTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (23 bp):
ATATTTTTAATATTTGAATTTTT
Found at i:8721811 original size:30 final size:30
Alignment explanation
Indices: 8721777--8721840 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
8721767 AAAGACTAAA
** *
8721777 TAAGCCCTCAAGTTTTCTAAAATAATCAAT
1 TAAGCCCTCAAACTTTCTAAAAGAATCAAT
* *
8721807 TAAGCCTTCAAACTTTCTAAAAGAATTAAT
1 TAAGCCCTCAAACTTTCTAAAAGAATCAAT
8721837 TAAG
1 TAAG
8721841 TCTTTTTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (30 bp):
TAAGCCCTCAAACTTTCTAAAAGAATCAAT
Found at i:8722218 original size:28 final size:28
Alignment explanation
Indices: 8722168--8722226 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
8722158 CTAGTGATTA
*
8722168 AAACATTATGGTATCGAGCCAATGCTTG
1 AAACATTATGGTATCAAGCCAATGCTTG
* * *
8722196 AAACATTATGTTTTCAAGTCAATGCTTG
1 AAACATTATGGTATCAAGCCAATGCTTG
8722224 AAA
1 AAA
8722227 GCAACGTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (28 bp):
AAACATTATGGTATCAAGCCAATGCTTG
Found at i:8722915 original size:161 final size:161
Alignment explanation
Indices: 8722633--8722959 Score: 568
Period size: 161 Copynumber: 2.0 Consensus size: 161
8722623 CAATTCAAGT
8722633 TCTTATAAAAATATGGGTAAATTACATAAATAATCACTAATGTTTGAATAAGTTTTTGTTTTTTT
1 TCTTATAAAAATATGGGTAAATTACATAAATAATCACTAATGTTTGAATAA-----TGTTTTTTT
8722698 TCCATTGAAATTTTAAAAATAACATATTGGTCACTAATGTTATCGATTTATAATAAAATAATTAC
61 TCCATTGAAATTTTAAAAATAACATATTGGTCACTAATGTTATCGATTTATAATAAAATAATTAC
8722763 TCGCCTTTAATAATCGTTATTGAGTTAACGAAATGTTG
126 T--CCTTTAATAATCGTTATTGAGTTAACGAAATGTTG
8722801 TCTTAT-AAAATATGGGTAAATTACATAAATAATCACTAATGTTTGAATAA-GTTTTTTTTCCAT
1 TCTTATAAAAATATGGGTAAATTACATAAATAATCACTAATGTTTGAATAATGTTTTTTTTCCAT
*
8722864 TGAAATTTTAAAAATAACATATTGGTCACTAATGTTATCGATTTGTAATAAAATAATTACTCCTT
66 TGAAATTTTAAAAATAACATATTGGTCACTAATGTTATCGATTTATAATAAAATAATTACTCCTT
8722929 TAATAATCGTTATTGAGTTAACGAAATGTTG
131 TAATAATCGTTATTGAGTTAACGAAATGTTG
8722960 ATGTGTCACC
Statistics
Matches: 158, Mismatches: 1, Indels: 9
0.94 0.01 0.05
Matches are distributed among these distances:
159 35 0.22
161 73 0.46
167 44 0.28
168 6 0.04
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.41
Consensus pattern (161 bp):
TCTTATAAAAATATGGGTAAATTACATAAATAATCACTAATGTTTGAATAATGTTTTTTTTCCAT
TGAAATTTTAAAAATAACATATTGGTCACTAATGTTATCGATTTATAATAAAATAATTACTCCTT
TAATAATCGTTATTGAGTTAACGAAATGTTG
Found at i:8724503 original size:35 final size:32
Alignment explanation
Indices: 8724431--8724503 Score: 146
Period size: 32 Copynumber: 2.3 Consensus size: 32
8724421 GAGAAGGCAA
8724431 CTGATGATGCTCTTAGGAAGAACTTGCAGTTT
1 CTGATGATGCTCTTAGGAAGAACTTGCAGTTT
8724463 CTGATGATGCTCTTAGGAAGAACTTGCAGTTT
1 CTGATGATGCTCTTAGGAAGAACTTGCAGTTT
8724495 CTGATGATG
1 CTGATGATG
8724504 GTTAGATATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (32 bp):
CTGATGATGCTCTTAGGAAGAACTTGCAGTTT
Found at i:8724600 original size:113 final size:113
Alignment explanation
Indices: 8724463--8724687 Score: 405
Period size: 113 Copynumber: 2.0 Consensus size: 113
8724453 CTTGCAGTTT
* * *
8724463 CTGATGATGCTCTTAGGAAGAACTTGCAGTTTCTGATGATGGTTAGATATCGTAGTTTTCATAAT
1 CTGATGATGCTCTTAGGAAGAACTTGCAGTTTCTGATAATGGTTAGATATAGTAGTTTTCAGAAT
8724528 TTCATGGGTTCTTTTTTTTATGTTTGAGATTCTTTCGTGGTTCCATAC
66 TTCATGGGTTCTTTTTTTTATGTTTGAGATTCTTTCGTGGTTCCATAC
* *
8724576 CTGATGATGCTCTTAGGAAGAACTTGCAGTTTCTGATAATGGTTTGATATAGTAGTTTTCAGACT
1 CTGATGATGCTCTTAGGAAGAACTTGCAGTTTCTGATAATGGTTAGATATAGTAGTTTTCAGAAT
8724641 TTCATGGGTTCTTTTTTTTATGTTTGAGATTCTTTCGTGGTTCCATA
66 TTCATGGGTTCTTTTTTTTATGTTTGAGATTCTTTCGTGGTTCCATA
8724688 GTTTCAAGCA
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 107 1.00
ACGTcount: A:0.20, C:0.13, G:0.21, T:0.45
Consensus pattern (113 bp):
CTGATGATGCTCTTAGGAAGAACTTGCAGTTTCTGATAATGGTTAGATATAGTAGTTTTCAGAAT
TTCATGGGTTCTTTTTTTTATGTTTGAGATTCTTTCGTGGTTCCATAC
Found at i:8732166 original size:78 final size:76
Alignment explanation
Indices: 8732033--8732281 Score: 241
Period size: 82 Copynumber: 3.2 Consensus size: 76
8732023 ATGAATATAT
* * * *
8732033 ATAAGTTACGTTCAATAATGTCATGATTTACTAAAAAAATAGGTTGTGATATGTAATGTTAATAT
1 ATAAGTTACG-CCAATAATATCATGATTCACT-AAGAAATAGGTTGTGATATGTAATGTTAATAT
8732098 TTTTATTAATAAA
64 TTTTATTAATAAA
* * *
8732111 ATAAGTTACGACCAATAATATTATGATTCACTAAGAAAGTAGGTTGCGATTTGTAACGTAATGTT
1 ATAAGTTACG-CCAATAATATCATGATTCACTAAGAAA-TAGGTTGTGA----T-ATGTAATGTT
*
8732176 AATATTTTT-TTAATAAG
59 AATATTTTTATTAATAAA
* * * ** *
8732193 ATAAATTGCGCTCAAGAATATCATTG-TTCACTAAGAAATAGGTTGTGATATGTTGTATTAATAT
1 ATAAGTTACGC-CAATAATATCA-TGATTCACTAAGAAATAGGTTGTGATATGTAATGTTAATAT
8732257 TTTTATTAATAAA
64 TTTTATTAATAAA
* *
8732270 ATACGTTGCGCC
1 ATAAGTTACGCC
8732282 CAAAAAAATA
Statistics
Matches: 141, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
76 16 0.11
77 22 0.16
78 36 0.26
81 10 0.07
82 37 0.26
83 20 0.14
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (76 bp):
ATAAGTTACGCCAATAATATCATGATTCACTAAGAAATAGGTTGTGATATGTAATGTTAATATTT
TTATTAATAAA
Found at i:8740920 original size:17 final size:17
Alignment explanation
Indices: 8740879--8740920 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
8740869 GTAAAATAGT
8740879 CGACTGTTGACCGTTGAC
1 CGAC-GTTGACCGTTGAC
*
8740897 CTG-CGTTGATCGTTGAC
1 C-GACGTTGACCGTTGAC
8740914 CGACGTT
1 CGACGTT
8740921 AACAAGAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
16 1 0.05
17 17 0.81
18 2 0.10
19 1 0.05
ACGTcount: A:0.14, C:0.26, G:0.29, T:0.31
Consensus pattern (17 bp):
CGACGTTGACCGTTGAC
Found at i:8744446 original size:17 final size:17
Alignment explanation
Indices: 8744433--8744465 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8744423 TATTATATAG
8744433 TATAAATATATATATTA
1 TATAAATATATATATTA
*
8744450 TATCAATATAT-TATTA
1 TATAAATATATATATTA
8744466 CATTATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
TATAAATATATATATTA
Found at i:8745390 original size:27 final size:27
Alignment explanation
Indices: 8745345--8745406 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
8745335 CTGTTTTAGA
* *
8745345 AAAAGGAGTAATGCGCATGATAATTGT
1 AAAAGGGGTAATGCACATGATAATTGT
* *
8745372 AAAAGGGGTACTGCACATGATATTTGT
1 AAAAGGGGTAATGCACATGATAATTGT
8745399 AAAAGGGG
1 AAAAGGGG
8745407 ATATTTGCGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.39, C:0.08, G:0.29, T:0.24
Consensus pattern (27 bp):
AAAAGGGGTAATGCACATGATAATTGT
Found at i:8745721 original size:25 final size:28
Alignment explanation
Indices: 8745687--8745737 Score: 81
Period size: 25 Copynumber: 1.9 Consensus size: 28
8745677 CTCTAAGCTT
8745687 TTATTC-TTTTTT-ATATT-TTTTTAAA
1 TTATTCTTTTTTTCATATTGTTTTTAAA
8745712 TTATTCTTTTTTTCATATTGTTTTTA
1 TTATTCTTTTTTTCATATTGTTTTTA
8745738 TTTTATTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 6 0.26
26 6 0.26
27 5 0.22
28 6 0.26
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.73
Consensus pattern (28 bp):
TTATTCTTTTTTTCATATTGTTTTTAAA
Found at i:8745722 original size:17 final size:17
Alignment explanation
Indices: 8745702--8745807 Score: 53
Period size: 17 Copynumber: 6.3 Consensus size: 17
8745692 CTTTTTTATA
8745702 TTTTTTTAAATTATTCT
1 TTTTTTTAAATTATTCT
* * *
8745719 TTTTTTCATATTGTT-T
1 TTTTTTTAAATTATTCT
*
8745735 TTATTTT--ATTA--CT
1 TTTTTTTAAATTATTCT
8745748 TTTATAATTTAACATTATTTCT
1 TTT-T--TTTAA-ATTA-TTCT
* * **
8745770 TTTTTTTAATTTTTTAA
1 TTTTTTTAAATTATTCT
8745787 TTTTTTT-AATTATTCT
1 TTTTTTTAAATTATTCT
8745803 TTTTT
1 TTTTT
8745808 ATTTTATTTC
Statistics
Matches: 64, Mismatches: 15, Indels: 21
0.64 0.15 0.21
Matches are distributed among these distances:
13 3 0.05
14 4 0.06
16 19 0.30
17 21 0.33
18 2 0.03
19 9 0.14
21 1 0.02
22 5 0.08
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.72
Consensus pattern (17 bp):
TTTTTTTAAATTATTCT
Found at i:8745743 original size:28 final size:26
Alignment explanation
Indices: 8745685--8745750 Score: 80
Period size: 28 Copynumber: 2.5 Consensus size: 26
8745675 CCCTCTAAGC
8745685 TTTTATTC-TTTTTTATATTTTTTTA
1 TTTTATTCTTTTTTTATATTTTTTTA
**
8745710 AATTATTCTTTTTTTCATATTGTTTTTA
1 TTTTATTCTTTTTTT-ATATT-TTTTTA
8745738 TTTTATTACTTTT
1 TTTTATT-CTTTT
8745751 ATAATTTAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 6 0.18
26 6 0.18
27 5 0.15
28 11 0.33
29 5 0.15
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (26 bp):
TTTTATTCTTTTTTTATATTTTTTTA
Found at i:8745832 original size:19 final size:16
Alignment explanation
Indices: 8745771--8745961 Score: 67
Period size: 15 Copynumber: 12.3 Consensus size: 16
8745761 ATTATTTCTT
*
8745771 TTTTTTAATTT-TTTAA
1 TTTTTTCATTTATTT-A
* * *
8745787 TTTTTTTAATTA-TTC
1 TTTTTTCATTTATTTA
8745802 TTTTTT-ATTTTATTTCA
1 TTTTTTCA-TTTATTT-A
8745819 TGTTTCTTCATTTATTTA
1 T-TTT-TTCATTTATTTA
8745837 TTTTTTCA-TT-TTTA
1 TTTTTTCATTTATTTA
*
8745851 CTTTTGTCTATTT-TTTA
1 -TTTTTTC-ATTTATTTA
*
8745868 TCTTTT--TTTATTTGA
1 TTTTTTCATTTATTT-A
8745883 -TTTTT-A-TTATTTTA
1 TTTTTTCATTTA-TTTA
8745897 TTTTTT-A-TT-TTTA
1 TTTTTTCATTTATTTA
*
8745910 TTTTTTTCTTTTGATTTA
1 -TTTTTTCATTT-ATTTA
*
8745928 TTATTATCA-TT-TTTA
1 TT-TTTTCATTTATTTA
*
8745943 --TTATCATTTATTTA
1 TTTTTTCATTTATTTA
8745957 TTTTT
1 TTTTT
8745962 ATATGATTTA
Statistics
Matches: 137, Mismatches: 13, Indels: 50
0.69 0.06 0.25
Matches are distributed among these distances:
12 6 0.04
13 9 0.07
14 26 0.19
15 33 0.24
16 26 0.19
17 14 0.10
18 13 0.09
19 9 0.07
20 1 0.01
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTTTTCATTTATTTA
Found at i:8745879 original size:45 final size:44
Alignment explanation
Indices: 8745829--8745944 Score: 112
Period size: 46 Copynumber: 2.5 Consensus size: 44
8745819 TGTTTCTTCA
8745829 TTTATTTATTTTTTCATTTTTACTTTTGTCTATTTTT-TATCTTT-T
1 TTTATTTATTTTTTCATTTTTA-TTTT-T-TATTTTTATATCTTTCT
* * *
8745874 TTTATTTGATTTTTATTA-TTTTATTTTTTATTTTTATTTTTTTCT
1 TTTATTT-ATTTTT-TCATTTTTATTTTTTATTTTTATATCTTTCT
*
8745919 TTTGATTTATTATTATCATTTTTATT
1 TTT-ATTTATT-TTTTCATTTTTATT
8745945 ATCATTTATT
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
43 7 0.12
44 6 0.10
45 20 0.34
46 24 0.41
47 2 0.03
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (44 bp):
TTTATTTATTTTTTCATTTTTATTTTTTATTTTTATATCTTTCT
Found at i:8745886 original size:21 final size:19
Alignment explanation
Indices: 8745862--8745932 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 19
8745852 TTTTGTCTAT
8745862 TTTTTATCTTTTTTTATTTGA
1 TTTTTAT-TTTTTTT-TTTGA
*
8745883 TTTTTATTATTTTATTTTTTA
1 TTTTTATT-TTTT-TTTTTGA
8745904 TTTTTATTTTTTTCTTTTGA
1 TTTTTATTTTTTT-TTTTGA
8745924 TTTATTATT
1 TTT-TTATT
8745933 ATCATTTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
19 1 0.02
20 13 0.30
21 28 0.64
22 2 0.05
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTTTATTTTTTTTTTTGA
Found at i:8745907 original size:6 final size:6
Alignment explanation
Indices: 8745872--8745963 Score: 51
Period size: 6 Copynumber: 14.2 Consensus size: 6
8745862 TTTTTATCTT
* *
8745872 TTTTTA -TTTGA TTTTTA TTATTTTA TTTTTTA TTTTTA TTTTTT TCTTTTGA
1 TTTTTA TTTTTA TTTTTA -T-TTTTA -TTTTTA TTTTTA TTTTTA T-TTTT-A
* * * *
8745924 TTTATTA TTATCA TTTTTA TTATCA TTTATTTA TTTTTA T
1 TTT-TTA TTTTTA TTTTTA TTTTTA -TT-TTTA TTTTTA T
8745964 ATGATTTATT
Statistics
Matches: 66, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
5 4 0.06
6 31 0.47
7 19 0.29
8 12 0.18
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:8745916 original size:8 final size:8
Alignment explanation
Indices: 8745770--8745921 Score: 57
Period size: 8 Copynumber: 18.5 Consensus size: 8
8745760 CATTATTTCT
8745770 TTTTTTTAA
1 TTTTTTT-A
*
8745779 TTTTTTAA
1 TTTTTTTA
8745787 TTTTTTTA
1 TTTTTTTA
* *
8745795 -ATTATT-
1 TTTTTTTA
*
8745801 CTTTTTTA
1 TTTTTTTA
8745809 TTTTATTTCA
1 TTTT-TTT-A
*
8745819 TGTTTCTTCA
1 T-TTT-TTTA
*
8745829 TTTATTTA
1 TTTTTTTA
*
8745837 TTTTTTCA
1 TTTTTTTA
8745845 --TTTTTA
1 TTTTTTTA
*
8745851 CTTTTGTCTA
1 -TTTT-TTTA
*
8745861 TTTTTTATC
1 TTTTTT-TA
8745870 TTTTTTTA
1 TTTTTTTA
8745878 TTTGATTTTTA
1 -TT--TTTTTA
*
8745889 TTATTTTA
1 TTTTTTTA
8745897 -TTTTTTA
1 TTTTTTTA
8745904 --TTTTTA
1 TTTTTTTA
*
8745910 TTTTTTTC
1 TTTTTTTA
8745918 TTTT
1 TTTT
8745922 GATTTATTAT
Statistics
Matches: 107, Mismatches: 21, Indels: 31
0.67 0.13 0.19
Matches are distributed among these distances:
6 11 0.10
7 14 0.13
8 36 0.34
9 26 0.24
10 9 0.08
11 11 0.10
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (8 bp):
TTTTTTTA
Found at i:8745921 original size:7 final size:7
Alignment explanation
Indices: 8745762--8745915 Score: 75
Period size: 7 Copynumber: 20.3 Consensus size: 7
8745752 TAATTTAACA
8745762 TTATTTCT
1 TTATTT-T
8745770 TT-TTTT
1 TTATTTT
*
8745776 TAATTTT
1 TTATTTT
8745783 TTAATTTTT
1 TT-A-TTTT
* *
8745792 TTAATTA
1 TTATTTT
*
8745799 TTCTTTT
1 TTATTTT
8745806 TTATTTTAT
1 TTA-TTT-T
8745815 TTCATGTTT
1 TT-AT-TTT
8745824 CTTCATTTAT
1 -TT-ATTT-T
8745834 TTATTTT
1 TTATTTT
8745841 TTCA-TTT
1 TT-ATTTT
8745848 TTACTTTT
1 TTA-TTTT
8745856 GTCTATTTT
1 -T-TATTTT
8745865 TTATCTTT
1 TTAT-TTT
8745873 TT-TTATT
1 TTATT-TT
*
8745880 TGA-TTT
1 TTATTTT
8745886 TTATTATT
1 TTATT-TT
8745894 TTATTTT
1 TTATTTT
8745901 TTA-TTT
1 TTATTTT
8745907 TTATTTT
1 TTATTTT
8745914 TT
1 TT
8745916 TCTTTTGATT
Statistics
Matches: 116, Mismatches: 10, Indels: 41
0.69 0.06 0.25
Matches are distributed among these distances:
6 14 0.12
7 43 0.37
8 28 0.24
9 20 0.17
10 11 0.09
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (7 bp):
TTATTTT
Found at i:8745944 original size:39 final size:41
Alignment explanation
Indices: 8745862--8745941 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
8745852 TTTTGTCTAT
*
8745862 TTTTTATCTTTTTTTATTTGATTTTTATTATTTTATTTTTTA
1 TTTTTATCTTTTTTTATTTGATTTTTATTA-TTCATTTTTTA
8745904 TTTTTAT-TTTTTTCT-TTTGATTTATTATTA-TCATTTTT
1 TTTTTATCTTTTTT-TATTTGATTT-TTATTATTCATTTTT
8745942 ATTATCATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
40 7 0.20
41 14 0.40
42 14 0.40
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.78
Consensus pattern (41 bp):
TTTTTATCTTTTTTTATTTGATTTTTATTATTCATTTTTTA
Found at i:8745970 original size:19 final size:20
Alignment explanation
Indices: 8745936--8745975 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
8745926 TATTATTATC
8745936 ATTTTTATTATCATTTATTT
1 ATTTTTATTATCATTTATTT
*
8745956 ATTTTTA-TATGATTTATTT
1 ATTTTTATTATCATTTATTT
8745975 A
1 A
8745976 AAATTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (20 bp):
ATTTTTATTATCATTTATTT
Found at i:8749743 original size:95 final size:95
Alignment explanation
Indices: 8749618--8749872 Score: 334
Period size: 95 Copynumber: 2.7 Consensus size: 95
8749608 ATATTATATT
*
8749618 TATACAATAAAGATTGAGTTGTCACTCTAGAGCAATTGGTTAAATGCCCCGGCTTTATGGATAAA
1 TATACAATAAAGATTGAGTTGTCACTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAA
*
8749683 ATTCAGCTAGCCTGATAAATGTGATTATAA
66 ATTCAGCTAGCCTGATAAAGGTGATTATAA
* * * * *
8749713 TATACAATAAAGCTTGAGTTATTC-CTCTAGAGCAATTGGTTAAACACTCTGGCTTTATGGATAA
1 TATACAATAAAGATTGAGTT-GTCACTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAA
*
8749777 TATTCAGCTAGCCTGATAAAGGTGATTATAA
65 AATTCAGCTAGCCTGATAAAGGTGATTATAA
* * * * *
8749808 TAT-CTATACAATGATGTTGAGTTGTCTCTCTAAAGCAATTGATTAAACGCCCCAGCTTTATGGA
1 TATACAATA-AA-GA--TTGAGTTGTCACTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGA
8749872 T
62 T
8749873 CCAGCTAGCC
Statistics
Matches: 137, Mismatches: 17, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
94 4 0.03
95 89 0.65
96 3 0.02
97 2 0.01
98 39 0.28
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (95 bp):
TATACAATAAAGATTGAGTTGTCACTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAA
ATTCAGCTAGCCTGATAAAGGTGATTATAA
Found at i:8751043 original size:86 final size:86
Alignment explanation
Indices: 8750938--8751100 Score: 247
Period size: 86 Copynumber: 1.9 Consensus size: 86
8750928 AAGAACATCT
* * * * *
8750938 CACATGGTTTTCCCGTGAAGGGGAGTTATCCAAAGATCATCTCACCTAGTTCAGACCCGCTAAAG
1 CACATGGCTTTCCCATGAAGGGGAGTCATCCAAAAATCATATCACCTAGTTCAGACCCGCT-AAG
8751003 G-GAACCACATGAGGAATATAC
65 GAGAACCACATGAGGAATATAC
* *
8751024 CACATGGCTTTCCCATGAAGGGGAGTCATCCAAAAATCATATCACTTGGTTCAGACCCGCTAAGG
1 CACATGGCTTTCCCATGAAGGGGAGTCATCCAAAAATCATATCACCTAGTTCAGACCCGCTAAGG
8751089 AGAACCACATGA
66 AGAACCACATGA
8751101 AAAATTATGA
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
85 4 0.06
86 65 0.94
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.21
Consensus pattern (86 bp):
CACATGGCTTTCCCATGAAGGGGAGTCATCCAAAAATCATATCACCTAGTTCAGACCCGCTAAGG
AGAACCACATGAGGAATATAC
Found at i:8751366 original size:85 final size:86
Alignment explanation
Indices: 8751163--8751821 Score: 793
Period size: 85 Copynumber: 7.8 Consensus size: 86
8751153 AACTATTGGC
* * *
8751163 AGCATAGCTCGAGGAGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCAACT
1 AGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCAGCT
* *
8751228 CAGAGGAATATC-AATTTA-T
66 CAAAGGCATATCAAATTTACT
* *
8751247 AGCATAGCTCAAGGCAAGAAGGGCTATCTCTCAACCAAGACCTTCGAGTTCGATTACATTCAGCT
1 AGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCAGCT
*
8751312 CAAAGGCATACCAAATTTACT
66 CAAAGGCATATCAAATTTACT
* * *
8751333 A-CATAGGTCAAGGTGAGAAGGGCTATATGTCAACCAAGACCTTCGAGTTCGATTACATTCAGCT
1 AGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCAGCT
8751397 CAAAGGCATATCAAATTTAC-
66 CAAAGGCATATCAAATTTACT
* * * * * * *
8751417 AGCATAACT-AGAGGCGAGAAGGGTTATTTGTCAACAAAGACTTTCAAGTTCGATTACAGTCAGC
1 AGCATAGCTCA-AGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCAGC
*
8751481 TCAAGGGCATATCAAATTTAC-
65 TCAAAGGCATATCAAATTTACT
* * * * * *
8751502 AGAATAGCTCAAGGTGAGAAGGGCTATCAGTCAACCAAAACCATCGAGTTCGATTACATTCAACT
1 AGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCAGCT
8751567 C-AAGGACATATCAAATTTAC-
66 CAAAGG-CATATCAAATTTACT
* * ** * * *
8751587 AGCATAACTCAAGGCGAGAAGGGTTATCTGT-AATAAAAACCTTCGAGTTCGATTCCATTTAGCT
1 AGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCAGCT
*
8751651 CAAAGGCATACCAAATTTA-T
66 CAAAGGCATATCAAATTTACT
* *
8751671 AGCATAGCTCAAGGCGACAAGGGCTATCTGTCAA-CAATGACCTTCAAGTTCGATTACATTCAGC
1 AGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAA-GACCTTCGAGTTCGATTACATTCAGC
*
8751735 TCAAATGCATATCAAATTTA-T
65 TCAAAGGCATATCAAATTTACT
* * * * * * * * * *
8751756 GGCATAACTCAAGGCGAGAAGGGTTATCTGTCTACAAAAACTTTCGAGTTTGATTTCATTTAGCT
1 AGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCAGCT
8751821 C
66 C
8751822 GAGGGCCTAT
Statistics
Matches: 492, Mismatches: 72, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
84 144 0.29
85 343 0.70
86 5 0.01
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (86 bp):
AGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCAGCT
CAAAGGCATATCAAATTTACT
Found at i:8751656 original size:254 final size:255
Alignment explanation
Indices: 8751162--8751815 Score: 825
Period size: 254 Copynumber: 2.6 Consensus size: 255
8751152 GAACTATTGG
* * * * *
8751162 CAGCATAGCTCGAGGAGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCAAC
1 CAGCATAGCTAGAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCAAGTTCGATTACATTCAGC
* * * *
8751227 TC-AGAGGAATATC-AATTTATAGCATAGCTCAAGGCAAGAAGGGCTATCTCTCAACCAAGACCT
66 TCAAG-GGCATATCAAATTTATAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAAACCT
* ** *
8751290 TCGAGTTCGATTACATTCAGCTCAAAGGCATACCAAATTTACTACATAGGTCAAGGTGAGAAGGG
130 TCGAGTTCGATTACATTCAACTCAAAGGCATACCAAATTTACTACATAACTCAAGGCGAGAAGGG
* * *
8751355 CTATATGTCAACCAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTA
195 CTATATGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATACCAAATTTA
* * * * *
8751416 CAGCATAACTAGAGGCGAGAAGGGTTATTTGTCAACAAAGACTTTCAAGTTCGATTACAGTCAGC
1 CAGCATAGCTAGAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCAAGTTCGATTACATTCAGC
* * * * *
8751481 TCAAGGGCATATCAAATTTACAGAATAGCTCAAGGTGAGAAGGGCTATCAGTCAACCAAAACCAT
66 TCAAGGGCATATCAAATTTATAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAAACCTT
*
8751546 CGAGTTCGATTACATTCAACTC-AAGGACATATCAAATTTAC-AGCATAACTCAAGGCGAGAAGG
131 CGAGTTCGATTACATTCAACTCAAAGG-CATACCAAATTTACTA-CATAACTCAAGGCGAGAAGG
* * * * *
8751609 GTTATCTGT-AATAAAAACCTTCGAGTTCGATTCCATTTAGCTCAAAGGCATACCAAATTTA
194 GCTATATGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATACCAAATTTA
* * *
8751670 TAGCATAGCTCA-AGGCGACAAGGGCTATCTGTCAACAATGACCTTCAAGTTCGATTACATTCAG
1 CAGCATAGCT-AGAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCAAGTTCGATTACATTCAG
** * * * * * *
8751734 CTCAAATGCATATCAAATTTATGGCATAACTCAAGGCGAGAAGGGTTATCTGTCTACAAAAACTT
65 CTCAAGGGCATATCAAATTTATAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAAACCT
* *
8751799 TCGAGTTTGATTTCATT
130 TCGAGTTCGATTACATT
8751816 TAGCTCGAGG
Statistics
Matches: 340, Mismatches: 55, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
254 236 0.69
255 104 0.31
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (255 bp):
CAGCATAGCTAGAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCAAGTTCGATTACATTCAGC
TCAAGGGCATATCAAATTTATAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAAACCTT
CGAGTTCGATTACATTCAACTCAAAGGCATACCAAATTTACTACATAACTCAAGGCGAGAAGGGC
TATATGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATACCAAATTTA
Found at i:8752273 original size:17 final size:17
Alignment explanation
Indices: 8752260--8752292 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8752250 TATTATATAG
8752260 TATAAATATATATATTA
1 TATAAATATATATATTA
*
8752277 TATCAATATAT-TATTA
1 TATAAATATATATATTA
8752293 CATTATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
TATAAATATATATATTA
Found at i:8753628 original size:17 final size:17
Alignment explanation
Indices: 8753606--8753779 Score: 55
Period size: 17 Copynumber: 10.0 Consensus size: 17
8753596 ATAATTTAAC
8753606 ATTTTTTCTTTTATTTA
1 ATTTTTTCTTTTATTTA
8753623 ATTTTTT-TTAATT-TTTA
1 ATTTTTTCTT--TTATTTA
8753640 ATTATTCTT-TTTTAATTTA
1 ATT-TT-TTCTTTT-ATTTA
*
8753659 TTTCATGTTTCTTCATTAATTTA
1 ATT--T-TTTCTT--TT-ATTTA
* * *
8753682 TTTTTTTCATTAATTT-
1 ATTTTTTCTTTTATTTA
*
8753698 ATTTTTTCTATT-TTT-
1 ATTTTTTCTTTTATTTA
8753713 ATCTTTTT-TTTTGATTT-
1 AT-TTTTTCTTTT-ATTTA
*
8753730 A-TTTTTCTTTGATTT-
1 ATTTTTTCTTTTATTTA
* *
8753745 ATTTTTT-TATTCTTTA
1 ATTTTTTCTTTTATTTA
*
8753761 TTTTTTTTCTTTTGATTTA
1 -ATTTTTTCTTTT-ATTTA
8753780 TTATTATCAT
Statistics
Matches: 122, Mismatches: 15, Indels: 38
0.70 0.09 0.22
Matches are distributed among these distances:
15 23 0.19
16 23 0.19
17 30 0.25
18 8 0.07
19 14 0.11
20 9 0.07
21 4 0.03
23 11 0.09
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (17 bp):
ATTTTTTCTTTTATTTA
Found at i:8753713 original size:15 final size:15
Alignment explanation
Indices: 8753677--8753767 Score: 87
Period size: 15 Copynumber: 5.8 Consensus size: 15
8753667 TTCTTCATTA
8753677 ATTTATTTTTTTCATT
1 ATTTATTTTTTT-ATT
8753693 AATTTATTTTTTCTATT
1 -ATTTATTTTTT-TATT
*
8753710 -TTTATCTTTTTTTTT
1 ATTTAT-TTTTTTATT
*
8753725 GATTTATTTTTCTT-TG
1 -ATTTATTTTT-TTATT
8753741 ATTTATTTTTTTATT
1 ATTTATTTTTTTATT
*
8753756 CTTTATTTTTTT
1 ATTTATTTTTTT
8753768 TCTTTTGATT
Statistics
Matches: 64, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
14 2 0.03
15 30 0.47
16 10 0.16
17 21 0.33
18 1 0.02
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.77
Consensus pattern (15 bp):
ATTTATTTTTTTATT
Found at i:8753730 original size:49 final size:51
Alignment explanation
Indices: 8753677--8753791 Score: 141
Period size: 47 Copynumber: 2.3 Consensus size: 51
8753667 TTCTTCATTA
8753677 ATTTATTTTTTTCATTAATTTATTTTTTCTATT-TTTA-TCTTTTT-TTTTG
1 ATTTATTTTTTTCATTAATTTATTTTTT-TATTCTTTATTCTTTTTCTTTTG
* * *
8753726 ATTTA--TTTTTCTTTGATTTATTTTTTTATTCTTTATTTTTTTTCTTTTG
1 ATTTATTTTTTTCATTAATTTATTTTTTTATTCTTTATTCTTTTTCTTTTG
* *
8753775 ATTTATTATTATCATTA
1 ATTTATTTTTTTCATTA
8753792 TTATTATTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
46 4 0.07
47 23 0.43
48 6 0.11
49 15 0.28
51 6 0.11
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (51 bp):
ATTTATTTTTTTCATTAATTTATTTTTTTATTCTTTATTCTTTTTCTTTTG
Found at i:8753746 original size:32 final size:31
Alignment explanation
Indices: 8753677--8753781 Score: 90
Period size: 32 Copynumber: 3.2 Consensus size: 31
8753667 TTCTTCATTA
*
8753677 ATTTATTTTTTTCATTAATTTATTTTTTCTATT-
1 ATTTATTTTTTT-TTTAATTTA-TTTTTCT-TTG
*
8753710 -TTTATCTTTTTTTTTGATTTATTTTTCTTTG
1 ATTTAT-TTTTTTTTTAATTTATTTTTCTTTG
*
8753741 ATTTATTTTTTTATTCTTTATTT-TTTTTCTTTTG
1 ATTTA-TTTTTT-TT-TTAATTTATTTTTC-TTTG
8753775 ATTTATT
1 ATTTATT
8753782 ATTATCATTA
Statistics
Matches: 62, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
30 2 0.03
31 7 0.11
32 21 0.34
33 17 0.27
34 15 0.24
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (31 bp):
ATTTATTTTTTTTTTAATTTATTTTTCTTTG
Found at i:8753783 original size:3 final size:3
Alignment explanation
Indices: 8753777--8753808 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
8753767 TTCTTTTGAT
*
8753777 TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8753809 TCTTATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:8753796 original size:34 final size:34
Alignment explanation
Indices: 8753726--8753796 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
8753716 TTTTTTTTTG
* * *
8753726 ATTTATTTTTCTTTGATTTATTTTTTTATTCTTT
1 ATTTATTTTTCTTTGATTTATTTTATCATTCATT
8753760 ATTT-TTTTTCTTTTGATTTATTATTATCATT-ATT
1 ATTTATTTTTC-TTTGATTTATT-TTATCATTCATT
8753794 ATT
1 ATT
8753797 ATTATTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 6 0.19
34 20 0.62
35 6 0.19
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (34 bp):
ATTTATTTTTCTTTGATTTATTTTATCATTCATT
Found at i:8754473 original size:76 final size:76
Alignment explanation
Indices: 8754279--8754576 Score: 359
Period size: 77 Copynumber: 3.9 Consensus size: 76
8754269 GCGAAATTTG
* * * *
8754279 TTTTATTAATAAAGATATTAATATTCTAGATCACAACCTATTTATTAGTGAACCATGACATTCTT
1 TTTTATTAATAAAAATATTAACATTC-AAATCACAACTTATTTATTAGTGAACCATGACATTCTT
* *
8754344 AGGCGTAACCTA
65 AGGCGCAACCCA
*
8754356 TTTTATTAATAAAAATATTAACATTTCAAATC-CAA-TATATTTATTAGTGAACCGTGACATT-T
1 TTTTATTAATAAAAATATTAACA-TTCAAATCACAACT-TATTTATTAGTGAACCATGACATTCT
*
8754418 TTGGCGCAACCCA
64 TAGGCGCAACCCA
** * *
8754431 TTTTATTAATAAAAATATTAACATTACAGGTCGCAACTTATTTCTTAGTGAACCATGACATTCTT
1 TTTTATTAATAAAAATATTAACATT-CAAATCACAACTTATTTATTAGTGAACCATGACATTCTT
* *
8754496 AGGCACAACTCA
65 AGGCGCAACCCA
* * * * *
8754508 TTTTATTAATAATATTATTAACATTCCAAATCACAACTTGTTTTTTAGTGAACCATGACATTTTT
1 TTTTATTAATAAAAATATTAACATT-CAAATCACAACTTATTTATTAGTGAACCATGACATTCTT
8754573 AGGC
65 AGGC
8754577 ACAATTGTAT
Statistics
Matches: 191, Mismatches: 24, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
74 2 0.01
75 38 0.20
76 51 0.27
77 97 0.51
78 3 0.02
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (76 bp):
TTTTATTAATAAAAATATTAACATTCAAATCACAACTTATTTATTAGTGAACCATGACATTCTTA
GGCGCAACCCA
Found at i:8754505 original size:37 final size:37
Alignment explanation
Indices: 8754464--8754592 Score: 87
Period size: 37 Copynumber: 3.4 Consensus size: 37
8754454 TTACAGGTCG
8754464 CAACTTATTTCTTAGTGAACCATGACATTCTTAGGCA
1 CAACTTATTTCTTAGTGAACCATGACATTCTTAGGCA
* * * * ** * ** **
8754501 CAACTCATTTTATTAATAATATTATTAACATTCCAAATCA
1 CAACTTA-TTTCTTAGTGA-ACCA-TGACATTCTTAGGCA
* * *
8754541 CAACTTGTTTTTTAGTGAACCATGACATTTTTAGGCA
1 CAACTTATTTCTTAGTGAACCATGACATTCTTAGGCA
*
8754578 CAATTGTATTTCTTA
1 CAACT-TATTTCTTA
8754593 TATATTTTCA
Statistics
Matches: 61, Mismatches: 27, Indels: 7
0.64 0.28 0.07
Matches are distributed among these distances:
37 19 0.31
38 17 0.28
39 10 0.16
40 15 0.25
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (37 bp):
CAACTTATTTCTTAGTGAACCATGACATTCTTAGGCA
Found at i:8766479 original size:11 final size:11
Alignment explanation
Indices: 8766462--8766491 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
8766452 ATGCCAAATG
8766462 TGCGTCATAAA
1 TGCGTCATAAA
*
8766473 TGTGTCATAAA
1 TGCGTCATAAA
8766484 TGCGTCAT
1 TGCGTCAT
8766492 GAATTTATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (11 bp):
TGCGTCATAAA
Found at i:8767881 original size:21 final size:21
Alignment explanation
Indices: 8767852--8767904 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
8767842 ATTCTGACTA
8767852 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
8767873 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
8767894 TCGCAATGCGA
1 TCGCATTGCGA
8767905 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:8767919 original size:20 final size:20
Alignment explanation
Indices: 8767894--8767946 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
8767884 TTTTCCTAAT
8767894 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
8767914 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
8767934 TCGCAATGTGAAT
1 TCGCAATGCGAAT
8767947 CTGACTATCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:8768166 original size:22 final size:22
Alignment explanation
Indices: 8768141--8768202 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 22
8768131 GGCGACATTC
8768141 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
8768163 GTCCCCA----CGACGATAA-CA
1 GTCCCCATCTCCGACGA-AATCA
* *
8768181 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
8768203 TTCACGGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 14 0.44
19 2 0.06
21 2 0.06
22 14 0.44
ACGTcount: A:0.27, C:0.39, G:0.16, T:0.18
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:8768560 original size:20 final size:20
Alignment explanation
Indices: 8768532--8768577 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
8768522 CGAGTGAATC
8768532 GCAACGCGAAAATGACTATA
1 GCAACGCGAAAATGACTATA
* ** *
8768552 GCAATGCGAATTTGACTATC
1 GCAACGCGAAAATGACTATA
8768572 GCAACG
1 GCAACG
8768578 AGAGAATCGC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (20 bp):
GCAACGCGAAAATGACTATA
Found at i:8768660 original size:20 final size:20
Alignment explanation
Indices: 8768590--8768676 Score: 95
Period size: 20 Copynumber: 4.4 Consensus size: 20
8768580 AGAATCGCAA
8768590 TGCGATTTTCA-TTTCGCGT
1 TGCGATTTTCATTTTCGCGT
** **
8768609 TGCGATAGTCAAATTCGCGT
1 TGCGATTTTCATTTTCGCGT
** *
8768629 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCATTTTCGCGT
*
8768649 TGCGATTTTCATTTTCGTGT
1 TGCGATTTTCATTTTCGCGT
8768669 TGCGATTT
1 TGCGATTT
8768677 AAAGTTTCAG
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
19 9 0.15
20 50 0.85
ACGTcount: A:0.15, C:0.17, G:0.23, T:0.45
Consensus pattern (20 bp):
TGCGATTTTCATTTTCGCGT
Found at i:8768684 original size:20 final size:20
Alignment explanation
Indices: 8768641--8768684 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
8768631 CGATAGTCAT
** *
8768641 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
8768661 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
8768681 TTTC
1 TTTC
8768685 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:8770554 original size:20 final size:20
Alignment explanation
Indices: 8770529--8770672 Score: 183
Period size: 20 Copynumber: 7.5 Consensus size: 20
8770519 AGAATAGTTT
*
8770529 ACTATCGCAATACGAAAATG
1 ACTATCGCAATGCGAAAATG
*
8770549 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
8770569 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
8770585 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
8770603 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
8770623 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
**
8770643 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
8770663 ACTATCGCAA
1 ACTATCGCAA
8770673 CGAAAGAATC
Statistics
Matches: 112, Mismatches: 6, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
14 7 0.06
16 4 0.04
17 4 0.04
18 4 0.04
20 93 0.83
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:8770645 original size:40 final size:40
Alignment explanation
Indices: 8770529--8770710 Score: 183
Period size: 40 Copynumber: 4.9 Consensus size: 40
8770519 AGAATAGTTT
* *
8770529 ACTATCGCAATACGAAAATGACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
*
8770569 ACTATCGCAA--CG-AGA-GA--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
**
8770603 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
**
8770643 ACTATCGCAATGCGAATTTGACTATCGCAA--CG-AAA-G
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
** *
8770679 A--ATCGCAATGCG-AAATGAAAATCGCATTGCGA
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGA
8770711 TTCTCTCGTT
Statistics
Matches: 119, Mismatches: 14, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
33 10 0.08
34 37 0.31
35 2 0.02
36 6 0.05
37 5 0.04
38 6 0.05
40 53 0.45
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (40 bp):
ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
Found at i:8770690 original size:94 final size:93
Alignment explanation
Indices: 8770529--8770710 Score: 265
Period size: 94 Copynumber: 1.9 Consensus size: 93
8770519 AGAATAGTTT
*
8770529 ACTATCGCAATACGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAGAGAATCGCAAT
1 ACTATCGCAATACGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAAT
**
8770594 GCGAAAATGACTATCGCAATGCGAAAATG
66 GCG-AAATGAAAATCGCAATGCGAAAATG
* ** * **
8770623 ACTATCGCAATGCGAATTTGACTATCGCAATGCGAATTTGACTATCGCAACGAAAGAATCGCAAT
1 ACTATCGCAATACGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAAT
*
8770688 GCGAAATGAAAATCGCATTGCGA
66 GCGAAATGAAAATCGCAATGCGA
8770711 TTCTCTCGTT
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
93 17 0.22
94 61 0.78
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (93 bp):
ACTATCGCAATACGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAAT
GCGAAATGAAAATCGCAATGCGAAAATG
Found at i:8770778 original size:87 final size:87
Alignment explanation
Indices: 8770687--8770852 Score: 251
Period size: 87 Copynumber: 1.9 Consensus size: 87
8770677 AGAATCGCAA
*
8770687 TGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCAATGTGATAGTCAT
1 TGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCAATGCGATAGTCAT
*
8770752 TTTCGCGTTGCGATTTTGTTGT
66 TTTCGCATTGCGATTTTGTTGT
** ** ** *
8770774 TGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAT
1 TGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCAATGCGATAGTCAT
8770839 TTTCGCATTGCGAT
66 TTTCGCATTGCGAT
8770853 AGTCATTTTC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (87 bp):
TGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCAATGCGATAGTCAT
TTTCGCATTGCGATTTTGTTGT
Found at i:8770796 original size:33 final size:34
Alignment explanation
Indices: 8770743--8770870 Score: 105
Period size: 33 Copynumber: 3.6 Consensus size: 34
8770733 TTCGCAATGT
* * * * *
8770743 GATAGTCATTTTCGCGTTGCGATTTTGTTGTTGC
1 GATAGTCAATTTCGCATTGCGATTCTCTCGTTGC
**
8770777 GATTTTC-ATTTCGCATTGCGATTCTCTCGTTGC
1 GATAGTCAATTTCGCATTGCGATTCTCTCGTTGC
* *
8770810 GATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGC
1 GATAGTCAATTTCGCATTGCGAT--TC--TCTCG--TTGC
*
8770850 GATAGTCATTTTCGCATTGCG
1 GATAGTCAATTTCGCATTGCG
8770871 CTAGTCATTT
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
33 26 0.35
34 19 0.26
36 2 0.03
38 4 0.05
40 23 0.31
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.41
Consensus pattern (34 bp):
GATAGTCAATTTCGCATTGCGATTCTCTCGTTGC
Found at i:8770831 original size:20 final size:20
Alignment explanation
Indices: 8770806--8770892 Score: 138
Period size: 20 Copynumber: 4.3 Consensus size: 20
8770796 GATTCTCTCG
**
8770806 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
8770826 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
8770846 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
8770866 TTGCGCTAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
8770886 TTGCGAT
1 TTGCGAT
8770893 TTTAAGTTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:8771463 original size:21 final size:21
Alignment explanation
Indices: 8771372--8771470 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 21
8771362 GACTCACCTG
8771372 TCATCGTTCAAGAGGCCTC-C
1 TCATCGTTCAAGAGGCCTCTC
* * *
8771392 CCTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCTCTC
** *
8771414 TCATCCCTCAAGAGTCCTCTC
1 TCATCGTTCAAGAGGCCTCTC
* * * *
8771435 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCTCTC
*
8771456 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
8771471 TCCCTCCCAA
Statistics
Matches: 58, Mismatches: 19, Indels: 3
0.73 0.24 0.04
Matches are distributed among these distances:
20 1 0.02
21 56 0.97
22 1 0.02
ACGTcount: A:0.22, C:0.34, G:0.20, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCTCTC
Found at i:8771469 original size:42 final size:42
Alignment explanation
Indices: 8771369--8771479 Score: 127
Period size: 42 Copynumber: 2.6 Consensus size: 42
8771359 CCCGACTCAC
* * *
8771369 CTGTCATCGTTCAAGAGGCCTC-CCCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCCTCTCCC-ACCGTTCAAGAGGCCA
* **
8771411 CTATCATCCCTCAAGAGTCCTCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCTCTCCCACCGTTCAAGAGGCCA
*
8771453 CTGTCATCGTTGAAGAGGTCC-CTCCCA
1 CTGTCATCGTTCAAGA-GTCCTCTCCCA
8771480 ACATTCTAGA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 50 0.88
43 7 0.12
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCTCTCCCACCGTTCAAGAGGCCA
Found at i:8772848 original size:14 final size:14
Alignment explanation
Indices: 8772829--8772864 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
8772819 ATTGTTTAAT
8772829 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
8772843 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
8772857 TGATTTGT
1 TGATTTGT
8772865 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:8773015 original size:33 final size:33
Alignment explanation
Indices: 8772966--8773060 Score: 109
Period size: 33 Copynumber: 2.8 Consensus size: 33
8772956 AAAACAGACT
* ** **
8772966 ATCACAACGCCGAAATGACTATCGCAATGAGAGA
1 ATCACAATG-CGAAATGAAAATCGCAACAAGAGA
*
8773000 ATCACAATGCGAAATGAAAATCGCAACAAGTGA
1 ATCACAATGCGAAATGAAAATCGCAACAAGAGA
*
8773033 ATCGCAATGCGAAAATGAAAATCGCAAC
1 ATCACAATGCG-AAATGAAAATCGCAAC
8773061 GCAAAACTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
33 29 0.55
34 24 0.45
ACGTcount: A:0.45, C:0.21, G:0.19, T:0.15
Consensus pattern (33 bp):
ATCACAATGCGAAATGAAAATCGCAACAAGAGA
Found at i:8773136 original size:19 final size:19
Alignment explanation
Indices: 8773078--8773157 Score: 98
Period size: 19 Copynumber: 4.4 Consensus size: 19
8773068 TAATTTCGTG
8773078 TTGCGATTTTCATTTTCGCA
1 TTGCGATTTTCA-TTTCGCA
*
8773098 TTGCGA--TTCA-CTCG--
1 TTGCGATTTTCATTTCGCA
8773112 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
8773131 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
8773150 TTGTGATT
1 TTGCGATT
8773158 CTCTCGTTGC
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
14 6 0.12
16 7 0.13
17 3 0.06
18 4 0.08
19 26 0.50
20 6 0.12
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:8773165 original size:52 final size:53
Alignment explanation
Indices: 8773078--8773179 Score: 161
Period size: 52 Copynumber: 1.9 Consensus size: 53
8773068 TAATTTCGTG
**
8773078 TTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATAGTCATTTCGCA
* *
8773131 TTGCGATTTTCA-TTTCGCATTGTGATTCTCTCGTTGCGATAGTCATTTC
1 TTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATAGTCATTTC
8773180 CGCGTTGTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 33 0.73
53 12 0.27
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (53 bp):
TTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATAGTCATTTCGCA
Found at i:8773191 original size:20 final size:20
Alignment explanation
Indices: 8773162--8773250 Score: 108
Period size: 20 Copynumber: 4.5 Consensus size: 20
8773152 GTGATTCTCT
8773162 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
8773182 CGTTGTGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
* *
8773202 CATTGCGATAGTCATTTCTG
1 CGTTGCGATAGTCATTTCCG
* *
8773222 TGTTGCGATAGTCA-TACTCG
1 CGTTGCGATAGTCATTTC-CG
8773242 CGTTGCGAT
1 CGTTGCGAT
8773251 TTCCGCATTG
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
19 2 0.04
20 55 0.96
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:8775463 original size:14 final size:14
Alignment explanation
Indices: 8775444--8775470 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8775434 TCCCGTGGCA
8775444 TTTTCTTTGGGGAC
1 TTTTCTTTGGGGAC
8775458 TTTTCTTTGGGGA
1 TTTTCTTTGGGGA
8775471 TTTCTTCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.11, G:0.30, T:0.52
Consensus pattern (14 bp):
TTTTCTTTGGGGAC
Found at i:8775734 original size:24 final size:24
Alignment explanation
Indices: 8775683--8775737 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
8775673 AAAATCCCAG
**
8775683 TATTGACCAAGATCAAAGTCCGGG
1 TATTGACCAAGATCAAAGTCCGAA
* *
8775707 TATTGACCAAGATCAAATTTCGAA
1 TATTGACCAAGATCAAAGTCCGAA
8775731 TATTGAC
1 TATTGAC
8775738 TAGTACTCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (24 bp):
TATTGACCAAGATCAAAGTCCGAA
Found at i:8776608 original size:20 final size:20
Alignment explanation
Indices: 8776585--8777017 Score: 430
Period size: 20 Copynumber: 21.3 Consensus size: 20
8776575 CAGAATCTCG
8776585 TTGCGATTTACAG-ATTCGCA
1 TTGCGATTTAC-GTATTCGCA
8776605 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
* * *
8776625 TTACGA-TTATGTAATCGCA
1 TTGCGATTTACGTATTCGCA
8776644 TTGCGATTTACGTATTCAGAAATCGA
1 TTGCGATTTACGTATTC-G----C-A
* *
8776670 GTTGCGAATTT--GAAATTCAGTA
1 -TTGCG-ATTTACG-TATTC-GCA
* * *
8776692 TTGTGATAGT-CAGAATCTCG--
1 TTGCGAT-TTAC-GTAT-TCGCA
*
8776712 TTGCGATTTACATATTCGCA
1 TTGCGATTTACGTATTCGCA
*
8776732 TTGCGATTTACGTATTCGCG
1 TTGCGATTTACGTATTCGCA
*
8776752 TTGCGATTTACGTATTCGCG
1 TTGCGATTTACGTATTCGCA
* *
8776772 TTGCGATTTACGTAATCGCG
1 TTGCGATTTACGTATTCGCA
*
8776792 TTGCGATTTACGTATTCGCG
1 TTGCGATTTACGTATTCGCA
*
8776812 TTGCGATTTACGTATTCGCG
1 TTGCGATTTACGTATTCGCA
*
8776832 TTGCGATTTACGTATTCGCG
1 TTGCGATTTACGTATTCGCA
*
8776852 TTGCGATTTACGTATTCGCG
1 TTGCGATTTACGTATTCGCA
*
8776872 TTGCGATTTACGTATTCGCG
1 TTGCGATTTACGTATTCGCA
* *
8776892 TTGCGATTTACGTATTCACG
1 TTGCGATTTACGTATTCGCA
*
8776912 TTGCGATTTACGTATTCGCG
1 TTGCGATTTACGTATTCGCA
* * *
8776932 TTACGATTTACGTAATCGCG
1 TTGCGATTTACGTATTCGCA
*
8776952 TTGCGATTTACGTATTCGCG
1 TTGCGATTTACGTATTCGCA
* *
8776972 TTGCGATTTACGTATTTGCG
1 TTGCGATTTACGTATTCGCA
* *
8776992 TTGTGATTTACGTATTCGCG
1 TTGCGATTTACGTATTCGCA
8777012 TTGCGA
1 TTGCGA
8777018 ATTAGGAAAA
Statistics
Matches: 367, Mismatches: 28, Indels: 36
0.85 0.06 0.08
Matches are distributed among these distances:
18 3 0.01
19 20 0.05
20 312 0.85
21 6 0.02
22 5 0.01
23 3 0.01
25 1 0.00
26 2 0.01
27 11 0.03
28 4 0.01
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:8776644 original size:19 final size:19
Alignment explanation
Indices: 8776600--8776657 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
8776590 ATTTACAGAT
*
8776600 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGA-TTACGTAA
* *
8776620 TCGCATTACGATTATGTAA
1 TCGCATTGCGATTACGTAA
8776639 TCGCATTGCGATTTACGTA
1 TCGCATTGCGA-TTACGTA
8776658 TTCAGAAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (19 bp):
TCGCATTGCGATTACGTAA
Found at i:8776756 original size:40 final size:40
Alignment explanation
Indices: 8776710--8777017 Score: 544
Period size: 40 Copynumber: 7.7 Consensus size: 40
8776700 GTCAGAATCT
* *
8776710 CGTTGCGATTTACATATTCGCATTGCGATTTACGTATTCG
1 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCG
*
8776750 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTAATCG
1 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCG
8776790 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCG
1 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCG
8776830 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCG
1 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCG
*
8776870 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCA
1 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCG
* *
8776910 CGTTGCGATTTACGTATTCGCGTTACGATTTACGTAATCG
1 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCG
*
8776950 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTTG
1 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCG
*
8776990 CGTTGTGATTTACGTATTCGCGTTGCGA
1 CGTTGCGATTTACGTATTCGCGTTGCGA
8777018 ATTAGGAAAA
Statistics
Matches: 256, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 256 1.00
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (40 bp):
CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCG
Found at i:8776782 original size:60 final size:60
Alignment explanation
Indices: 8776710--8777017 Score: 544
Period size: 60 Copynumber: 5.1 Consensus size: 60
8776700 GTCAGAATCT
* *
8776710 CGTTGCGATTTACATATTCGCATTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCG
1 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCG
*
8776770 CGTTGCGATTTACGTAATCGCGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCG
1 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCG
8776830 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCG
1 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCG
* * *
8776890 CGTTGCGATTTACGTATTCACGTTGCGATTTACGTATTCGCGTTACGATTTACGTAATCG
1 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCG
* *
8776950 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTTGCGTTGTGATTTACGTATTCG
1 CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCG
8777010 CGTTGCGA
1 CGTTGCGA
8777018 ATTAGGAAAA
Statistics
Matches: 236, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 236 1.00
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (60 bp):
CGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCGCGTTGCGATTTACGTATTCG
Found at i:8777038 original size:21 final size:21
Alignment explanation
Indices: 8777014--8777059 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
8777004 TATTCGCGTT
8777014 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
8777035 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
8777056 GCGA
1 GCGA
8777060 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:8779287 original size:2 final size:2
Alignment explanation
Indices: 8779282--8779313 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8779272 CTCTTTCATT
8779282 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8779314 GTTCGCAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8779381 original size:38 final size:37
Alignment explanation
Indices: 8779339--8779575 Score: 213
Period size: 37 Copynumber: 6.2 Consensus size: 37
8779329 TTGAAAATAC
*
8779339 ATATATAATATATAGTTTTTTAAAAAAGCA-TTTTGAAA
1 ATATATAATATATAGATTTTT-AAAAA-CATTTTTGAAA
*
8779377 ATATATATAGTATATAG--TTTTAAAAACACTTTTGAAA
1 ATATATA-A-TATATAGATTTTTAAAAACATTTTTGAAA
*
8779414 ACTATATAATATATA-ATTTTT-AAAACATTTTAGAAAA
1 A-TATATAATATATAGATTTTTAAAAACATTTTTG-AAA
*
8779451 ATATATAATATAT-GATTTTTAAAATCATTTTTTGAAA
1 ATATATAATATATAGATTTTTAAAAACA-TTTTTGAAA
*
8779488 ACTTATATAATATATAG-TTTTTGAAAACATTTTTGAAAA
1 A--TATATAATATATAGATTTTTAAAAACATTTTTG-AAA
*
8779527 CTTATATATAATATATA-ATTTTT-AAAACTCTTTTTAGAAA
1 ---ATATATAATATATAGATTTTTAAAAAC-ATTTTT-GAAA
*
8779567 TTATATAAT
1 ATATATAAT
8779576 TTTTAAAAAA
Statistics
Matches: 171, Mismatches: 8, Indels: 41
0.78 0.04 0.19
Matches are distributed among these distances:
36 36 0.21
37 40 0.23
38 28 0.16
39 31 0.18
40 34 0.20
41 1 0.01
42 1 0.01
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (37 bp):
ATATATAATATATAGATTTTTAAAAACATTTTTGAAA
Found at i:8779427 original size:36 final size:36
Alignment explanation
Indices: 8779340--8779575 Score: 199
Period size: 39 Copynumber: 6.2 Consensus size: 36
8779330 TGAAAATACA
8779340 TATATAATATATAGTTTTTTAAAAA-AGCATTTTGAAAA-
1 TATATAATATATAG--TTTTAAAAACA-C-TTTTGAAAAC
8779378 TATATATAGTATATAGTTTTAAAAACACTTTTGAAAAC
1 TATATA-A-TATATAGTTTTAAAAACACTTTTGAAAAC
* * *
8779416 TATATAATATATAATTTTTAAAACA-TTTTAGAAAAA
1 TATATAATATATAGTTTTAAAAACACTTTT-GAAAAC
* * *
8779452 TATATAATATATGATTTTTAAAATCATTTTTTGAAAAC
1 TATATAATATAT-AGTTTTAAAAACA-CTTTTGAAAAC
* *
8779490 TTATATAATATATAGTTTTTGAAAACATTTTTGAAAAC
1 -TATATAATATATAG-TTTTAAAAACACTTTTGAAAAC
* * * * *
8779528 TTATATATAATATATAATTTTTAAAACTCTTTTTAGAAAT
1 ---TATATAATATATAGTTTTAAAAACACTTTTGA-AAAC
8779568 TATATAAT
1 TATATAAT
8779576 TTTTAAAAAA
Statistics
Matches: 168, Mismatches: 17, Indels: 27
0.79 0.08 0.13
Matches are distributed among these distances:
35 4 0.02
36 33 0.20
37 28 0.17
38 39 0.23
39 41 0.24
40 23 0.14
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (36 bp):
TATATAATATATAGTTTTAAAAACACTTTTGAAAAC
Found at i:8779591 original size:111 final size:108
Alignment explanation
Indices: 8779355--8779605 Score: 282
Period size: 111 Copynumber: 2.3 Consensus size: 108
8779345 AATATATAGT
* *
8779355 TTTTTAAAAAAGCA-TTTTGAAAATATATATAGTATATAGTTTTAAAAACACTTTTGAAAACTAT
1 TTTTTAAAAAAACATTTTTGAAAATATATATAATATATAGTTTTAAAAACACTTTTGAAAACTAT
8779419 ATAATATATAATTTTTAAAACATTTTAGAAAAATATATAATATA
66 ATAATATATAATTTTTAAAACATTTTAG-AAAATATATAATATA
* * * *
8779463 TGATTTT-TAAAATCATTTTTTGAAAACT-TATATAATATATAGTTTTTGAAAACATTTTTGAAA
1 T--TTTTAAAAAAACA-TTTTTGAAAA-TATATATAATATATAG-TTTTAAAAACACTTTTGAAA
*
8779526 ACTTATATATAATATATAATTTTTAAAACTCTTTTTAG-AAAT-TAT-ATA-A
61 AC---TATATAATATATAATTTTTAAAA--CATTTTAGAAAATATATAATATA
8779575 TTTTTAAAAAAACATTTTTGAAAATGATATA
1 TTTTTAAAAAAACATTTTTGAAAAT-ATATA
8779606 GCTTTTTTAA
Statistics
Matches: 121, Mismatches: 8, Indels: 25
0.79 0.05 0.16
Matches are distributed among these distances:
108 1 0.01
109 7 0.06
110 18 0.15
111 32 0.26
112 23 0.19
113 3 0.02
114 3 0.02
115 27 0.22
117 7 0.06
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.44
Consensus pattern (108 bp):
TTTTTAAAAAAACATTTTTGAAAATATATATAATATATAGTTTTAAAAACACTTTTGAAAACTAT
ATAATATATAATTTTTAAAACATTTTAGAAAATATATAATATA
Found at i:8779593 original size:32 final size:31
Alignment explanation
Indices: 8779538--8779637 Score: 96
Period size: 32 Copynumber: 3.2 Consensus size: 31
8779528 TTATATATAA
**
8779538 TATATAATTTTTAAAACTC-TTTTTAGAAAT
1 TATATAATTTTTAAAAAACATTTTTAGAAAT
8779568 TATATAATTTTTAAAAAAACATTTTT-GAAAAT
1 TATATAATTTTT-AAAAAACATTTTTAG-AAAT
* * * *
8779600 GATATAGCTTTTTTAAAAACATTTTTAAAAAAT
1 TATATA-ATTTTTAAAAAACATTTTT-AGAAAT
8779633 TATAT
1 TATAT
8779638 TATATAGTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
30 12 0.21
31 6 0.11
32 26 0.46
33 13 0.23
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (31 bp):
TATATAATTTTTAAAAAACATTTTTAGAAAT
Found at i:8779681 original size:10 final size:10
Alignment explanation
Indices: 8779668--8779730 Score: 81
Period size: 10 Copynumber: 5.9 Consensus size: 10
8779658 ATTTTTATAT
8779668 TTATTTATTA
1 TTATTTATTA
8779678 TTATTTATTA
1 TTATTTATTA
8779688 TTATTTACTACTA
1 TTATTTA-T--TA
8779701 TTATTTATTA
1 TTATTTATTA
*
8779711 TTATTTCTTA
1 TTATTTATTA
8779721 TTCATTTATT
1 TT-ATTTATT
8779731 TTTCTGTCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
10 30 0.64
11 7 0.15
12 1 0.02
13 9 0.19
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (10 bp):
TTATTTATTA
Found at i:8779692 original size:13 final size:13
Alignment explanation
Indices: 8779672--8779715 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
8779662 TTATATTTAT
8779672 TTATTA-TTATTTA
1 TTATTATTTA-TTA
*
8779685 TTATTATTTACTA
1 TTATTATTTATTA
*
8779698 CTATTATTTATTA
1 TTATTATTTATTA
8779711 TTATT
1 TTATT
8779716 TCTTATTCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 23 0.88
14 3 0.12
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (13 bp):
TTATTATTTATTA
Found at i:8780996 original size:36 final size:36
Alignment explanation
Indices: 8780893--8780999 Score: 92
Period size: 37 Copynumber: 2.9 Consensus size: 36
8780883 TTTTATTTAA
* * * *
8780893 TATTGTTCTTTTGATATTTTTTTCCTCTCTTTGATTATT
1 TATT-TTCTTTT-ATA-TTTTTTCTTTTCTTTAACTATT
* *
8780932 TGTTTT-TTATATATATATTTTT-TATTCTTTAACTATT
1 TATTTTCTT-T-TATAT-TTTTTCTTTTCTTTAACTATT
8780969 TATTTTCTTTTATATTTTTTCTTTTCTTTAA
1 TATTTTCTTTTATATTTTTTCTTTTCTTTAA
8781000 TTTATTATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
35 5 0.09
36 14 0.25
37 19 0.35
38 13 0.24
39 4 0.07
ACGTcount: A:0.18, C:0.09, G:0.04, T:0.69
Consensus pattern (36 bp):
TATTTTCTTTTATATTTTTTCTTTTCTTTAACTATT
Found at i:8781008 original size:36 final size:35
Alignment explanation
Indices: 8780884--8781010 Score: 89
Period size: 36 Copynumber: 3.4 Consensus size: 35
8780874 CCTTTTTTAT
* * * *
8780884 TTTATTTAATATTGTTCTTTTGATATTTTTTTCCTCTC
1 TTTAATTATTATT-TTCTTTT-ATA-TTTTTTCTTTTC
*
8780922 TTTGATTATT-TGTTT-TTTATATATATATTTT-TTATTC
1 TTTAATTATTAT-TTTCTTT-TATAT-T-TTTTCTT-TTC
*
8780959 TTTAACTATTTATTTTCTTTTATATTTTTTCTTTTC
1 TTTAATTA-TTATTTTCTTTTATATTTTTTCTTTTC
8780995 TTTAATTTATTATTTT
1 TTTAA-TTATTATTTT
8781011 AATAAGTCTT
Statistics
Matches: 71, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
35 1 0.01
36 27 0.38
37 21 0.30
38 18 0.25
39 4 0.06
ACGTcount: A:0.19, C:0.08, G:0.03, T:0.70
Consensus pattern (35 bp):
TTTAATTATTATTTTCTTTTATATTTTTTCTTTTC
Found at i:8781034 original size:7 final size:7
Alignment explanation
Indices: 8781020--8781085 Score: 62
Period size: 7 Copynumber: 8.9 Consensus size: 7
8781010 TAATAAGTCT
8781020 TTTTTTA
1 TTTTTTA
*
8781027 TGTTTTA
1 TTTTTTA
8781034 TGATTTTTA
1 T--TTTTTA
8781043 TTTATTTA
1 TTT-TTTA
*
8781051 -ATTTTA
1 TTTTTTA
8781057 TTTTTTA
1 TTTTTTA
8781064 TTTTTTA
1 TTTTTTA
8781071 TTATTATTA
1 TT-TT-TTA
8781080 TTTTTT
1 TTTTTT
8781086 TATCTCACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
6 4 0.08
7 26 0.53
8 8 0.16
9 11 0.22
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (7 bp):
TTTTTTA
Found at i:8781059 original size:20 final size:20
Alignment explanation
Indices: 8781019--8781088 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
8781009 TTAATAAGTC
*
8781019 TTTT-TTTATGTT-TTATGAT
1 TTTTATTTAT-TTATTATTAT
8781038 TTTTATTTATTTAATT-TTATT
1 TTTTATTTATTT-ATTATTA-T
8781059 TTTTATTT-TTTATTATTAT
1 TTTTATTTATTTATTATTAT
*
8781078 TATTTTTTTAT
1 T-TTTATTTAT
8781089 CTCACATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
19 11 0.26
20 19 0.45
21 12 0.29
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTTATTTATTTATTATTAT
Found at i:8781088 original size:14 final size:13
Alignment explanation
Indices: 8781029--8781088 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
8781019 TTTTTTTATG
*
8781029 TTTTATGATTTTT
1 TTTTATTATTTTT
* *
8781042 ATTTATTTAATTTTA
1 TTTTA-TT-ATTTTT
8781057 TTTT-TTATTTTT
1 TTTTATTATTTTT
*
8781069 TATTATTATTATTT
1 TTTTATTATT-TTT
8781083 TTTTAT
1 TTTTAT
8781089 CTCACATTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
12 8 0.22
13 11 0.31
14 9 0.25
15 8 0.22
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTTATTATTTTT
Found at i:8781088 original size:17 final size:14
Alignment explanation
Indices: 8781020--8781085 Score: 62
Period size: 16 Copynumber: 4.4 Consensus size: 14
8781010 TAATAAGTCT
*
8781020 TTTTTTATGTTTTA
1 TTTTTTATTTTTTA
8781034 TGATTTTTATTTATTTA
1 T--TTTTTATTT-TTTA
*
8781051 -ATTTTATTTTTTA
1 TTTTTTATTTTTTA
8781064 TTTTTTATTATTATTA
1 TTTTTTATT-TT-TTA
8781080 TTTTTT
1 TTTTTT
8781086 TATCTCACAT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
13 4 0.09
14 16 0.37
15 2 0.05
16 17 0.40
17 4 0.09
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTTTTATTTTTTA
Found at i:8781491 original size:23 final size:22
Alignment explanation
Indices: 8781444--8781491 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
8781434 CTTACATGTT
8781444 AGGATGAATTTAAAATTATTTAA
1 AGGATGAATTTAAAA-TATTTAA
8781467 AGGATGAATTTATAAA-ATTTCAA
1 AGGATGAATTTA-AAATATTT-AA
8781490 AG
1 AG
8781492 AACGAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 4 0.17
23 16 0.70
24 3 0.13
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.35
Consensus pattern (22 bp):
AGGATGAATTTAAAATATTTAA
Found at i:8781623 original size:15 final size:15
Alignment explanation
Indices: 8781603--8781633 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8781593 GCTCCCCTCA
8781603 ATCCATCCCTAGCCT
1 ATCCATCCCTAGCCT
*
8781618 ATCCATCCGTAGCCT
1 ATCCATCCCTAGCCT
8781633 A
1 A
8781634 AGTTGAGCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.42, G:0.10, T:0.26
Consensus pattern (15 bp):
ATCCATCCCTAGCCT
Found at i:8789937 original size:24 final size:24
Alignment explanation
Indices: 8789861--8789929 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 24
8789851 TCCATAATTG
* * *
8789861 CATCATACTTGAATAAAATAAAGT
1 CATCATACTTTAACAAAATAAAGC
*
8789885 CATCATACATTAACAAAATAAAGC
1 CATCATACTTTAACAAAATAAAGC
*
8789909 CATCAAACTTTAACAAAATAA
1 CATCATACTTTAACAAAATAA
8789930 TTGCATCATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.54, C:0.17, G:0.04, T:0.25
Consensus pattern (24 bp):
CATCATACTTTAACAAAATAAAGC
Found at i:8791125 original size:2 final size:2
Alignment explanation
Indices: 8791066--8791114 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
8791056 GAATATACCT
*
8791066 TA TA -A TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA 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
8791107 TA TA TA TA
1 TA TA TA TA
8791115 ATAAAATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:8791133 original size:12 final size:12
Alignment explanation
Indices: 8791069--8791134 Score: 69
Period size: 12 Copynumber: 5.3 Consensus size: 12
8791059 TATACCTTAT
*
8791069 AATATATACATA
1 AATATATATATA
*
8791081 TATATATATATA
1 AATATATATATA
*
8791093 TATATATATATA
1 AATATATATATA
*
8791105 TATATATATAATAA
1 AATATATAT-AT-A
*
8791119 AATATATTTATA
1 AATATATATATA
8791131 AATA
1 AATA
8791135 AATAAGGTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
12 36 0.75
13 4 0.08
14 8 0.17
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (12 bp):
AATATATATATA
Found at i:8791137 original size:16 final size:16
Alignment explanation
Indices: 8791069--8791138 Score: 68
Period size: 16 Copynumber: 4.2 Consensus size: 16
8791059 TATACCTTAT
* *
8791069 AATATATACATATATA
1 AATATATATATAAATA
* *
8791085 TATATATATATATATA
1 AATATATATATAAATA
*
8791101 TATATATATATATAATAA
1 AATATATATATA-AAT-A
*
8791119 AATATATTTATAAATA
1 AATATATATATAAATA
8791135 AATA
1 AATA
8791139 AGGTTTTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
16 31 0.66
17 5 0.11
18 11 0.23
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATATATAAATA
Found at i:8793187 original size:21 final size:22
Alignment explanation
Indices: 8793147--8793208 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
8793137 TATGAATACA
8793147 AAATCCAA-AAAATCAA-AACCCT
1 AAAT-CAAGAAAAT-AAGAACCCT
*
8793169 AAAT-GAGAAAATAAGAACCCT
1 AAATCAAGAAAATAAGAACCCT
*
8793190 AAATCAAGAGAATAAGAAC
1 AAATCAAGAAAATAAGAAC
8793209 ACTAGACGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 3 0.09
21 15 0.44
22 16 0.47
ACGTcount: A:0.60, C:0.18, G:0.10, T:0.13
Consensus pattern (22 bp):
AAATCAAGAAAATAAGAACCCT
Found at i:8793206 original size:22 final size:21
Alignment explanation
Indices: 8793155--8793208 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
8793145 CAAAATCCAA
*
8793155 AAAATCAA-AACCCTAAATGAG
1 AAAAT-AAGAACCCTAAATAAG
8793176 AAAATAAGAACCCTAAATCAAG
1 AAAATAAGAACCCTAAAT-AAG
*
8793198 AGAATAAGAAC
1 AAAATAAGAAC
8793209 ACTAGACGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 15 0.52
22 12 0.41
ACGTcount: A:0.59, C:0.17, G:0.11, T:0.13
Consensus pattern (21 bp):
AAAATAAGAACCCTAAATAAG
Found at i:8796435 original size:17 final size:17
Alignment explanation
Indices: 8796397--8796436 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
8796387 TTTCTCAGAT
*
8796397 AGATGCCTTTCTGATTC
1 AGATTCCTTTCTGATTC
8796414 AGATTCCTTTCTGATTC
1 AGATTCCTTTCTGATTC
8796431 AGATTC
1 AGATTC
8796437 GGAACCAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (17 bp):
AGATTCCTTTCTGATTC
Found at i:8797970 original size:46 final size:46
Alignment explanation
Indices: 8797896--8797995 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 46
8797886 GCCCCTGCGT
* * *
8797896 GCATGGCAACAATAATGGCGTGTAATACTACCACGTGAATCTGCAG
1 GCATGACAACAATAATGACGTGCAATACTACCACGTGAATCTGCAG
* * * * *
8797942 GCATGACAGCAATAATGACGTGCGATACTTCCACGTTAATCTGTAG
1 GCATGACAACAATAATGACGTGCAATACTACCACGTGAATCTGCAG
8797988 GCATGACA
1 GCATGACA
8797996 TCGATTATTA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (46 bp):
GCATGACAACAATAATGACGTGCAATACTACCACGTGAATCTGCAG
Found at i:8798375 original size:44 final size:45
Alignment explanation
Indices: 8798325--8798412 Score: 142
Period size: 46 Copynumber: 2.0 Consensus size: 45
8798315 TTGTCATGCT
*
8798325 TACAGATT-CGTGGTAGTACTACACGCCATTATTGCTGCCATGTC
1 TACAGATTACGTGATAGTACTACACGCCATTATTGCTGCCATGTC
*
8798369 TACAGATTCACGTGATAGTATTACACGCCATTATTGCTGCCATG
1 TACAGATT-ACGTGATAGTACTACACGCCATTATTGCTGCCATG
8798413 CATGCATGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 8 0.20
46 32 0.80
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (45 bp):
TACAGATTACGTGATAGTACTACACGCCATTATTGCTGCCATGTC
Found at i:8799416 original size:22 final size:22
Alignment explanation
Indices: 8799388--8799433 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
8799378 TTTTATATGG
8799388 AAATAAATGTCTCTTTCTAGGT
1 AAATAAATGTCTCTTTCTAGGT
8799410 AAATAAATGTCTCTTTCTAGGT
1 AAATAAATGTCTCTTTCTAGGT
8799432 AA
1 AA
8799434 GTCGACATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (22 bp):
AAATAAATGTCTCTTTCTAGGT
Found at i:8800163 original size:3 final size:3
Alignment explanation
Indices: 8800146--8800271 Score: 114
Period size: 3 Copynumber: 41.7 Consensus size: 3
8800136 TCTACAAAAA
* * * * *
8800146 TAT TAT TAG TA- TAT TAT TAT TAT TAA TAT TAAT TA- TAA TAA TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
* * * *
8800190 TAA TAA TAT TAT TAT TAT TAT TAAT TA- TAA TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
8800235 TAAT TAT TAT TAT TAAT TAT TAT TAT TAT TAT TAT TA
1 T-AT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TA
8800272 CATTTTTTTA
Statistics
Matches: 110, Mismatches: 6, Indels: 14
0.85 0.05 0.11
Matches are distributed among these distances:
2 6 0.05
3 92 0.84
4 12 0.11
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:8800646 original size:2 final size:2
Alignment explanation
Indices: 8800639--8800676 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
8800629 TTCGTTCGAA
8800639 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8800677 TTGCAATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8802154 original size:20 final size:20
Alignment explanation
Indices: 8802106--8802148 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8802096 CGAATAATTT
* * *
8802106 AATCGAATATATAATTTTAA
1 AATCAAATATAAAATCTTAA
8802126 AATCAAATATAAAATCTTAA
1 AATCAAATATAAAATCTTAA
8802146 AAT
1 AAT
8802149 TCAATAGGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (20 bp):
AATCAAATATAAAATCTTAA
Found at i:8802624 original size:23 final size:23
Alignment explanation
Indices: 8802576--8802624 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
8802566 AAAAATATTC
* *
8802576 AATATTCAAACCATTCAAATAGA
1 AATATTCAAACCATTCAAACACA
8802599 AATATTCAAA-CATTCAAAACACA
1 AATATTCAAACCATTC-AAACACA
8802622 AAT
1 AAT
8802625 CCAAAAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.55, C:0.18, G:0.02, T:0.24
Consensus pattern (23 bp):
AATATTCAAACCATTCAAACACA
Found at i:8810474 original size:20 final size:18
Alignment explanation
Indices: 8810435--8810475 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
8810425 TCGAATAATT
*
8810435 AATCGAATATAATTTTAA
1 AATCGAATATAATCTTAA
8810453 AATCGAATATAAAATCTTAA
1 AATCGAATAT--AATCTTAA
8810473 AAT
1 AAT
8810476 TTATAGAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
20 10 0.50
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (18 bp):
AATCGAATATAATCTTAA
Found at i:8812661 original size:28 final size:28
Alignment explanation
Indices: 8812622--8812688 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
8812612 TTTAAGTACC
* * * *
8812622 TAAAATGTTTTTTAGTCAAAATAAATACT
1 TAAAATATTTTTGA-TCAAAACAAATACA
* *
8812651 TAAAATATTTTTGATCAAACCAGATACA
1 TAAAATATTTTTGATCAAAACAAATACA
8812679 TAAAATATTT
1 TAAAATATTT
8812689 AATTTTTTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 20 0.62
29 12 0.38
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (28 bp):
TAAAATATTTTTGATCAAAACAAATACA
Found at i:8825326 original size:11 final size:11
Alignment explanation
Indices: 8825310--8825340 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8825300 TGAACAAATG
8825310 TAATATGAATA
1 TAATATGAATA
8825321 TAATATGAATA
1 TAATATGAATA
*
8825332 TGATATGAA
1 TAATATGAA
8825341 ACAGATATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (11 bp):
TAATATGAATA
Found at i:8829103 original size:30 final size:29
Alignment explanation
Indices: 8829069--8829166 Score: 99
Period size: 33 Copynumber: 3.2 Consensus size: 29
8829059 TTTCTTCATT
8829069 TAAGTATCTAAAATATTCTTTTTGTCAAAA
1 TAAGTATCTAAAATATT-TTTTTGTCAAAA
* *
8829099 TAAGTATCTAAACTTATTTTTTATTTATCAAAA
1 TAAGTATCTAAA---ATATTTT-TTTGTCAAAA
* *
8829132 TAGGTA-CTTAAAATATTTTTTGGTCAAAA
1 TAAGTATC-TAAAATATTTTTTTGTCAAAA
8829161 TAAGTA
1 TAAGTA
8829167 CCTTAAGTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
29 13 0.23
30 18 0.32
32 3 0.05
33 22 0.39
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (29 bp):
TAAGTATCTAAAATATTTTTTTGTCAAAA
Found at i:8832600 original size:2 final size:2
Alignment explanation
Indices: 8832593--8832629 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8832583 TACTAAGGCA
8832593 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8832630 ATAACCTAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8834976 original size:23 final size:23
Alignment explanation
Indices: 8834945--8835001 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
8834935 TTTGAACTTA
* * *
8834945 TAAAGGAATATGTTCATGAACAC
1 TAAATGAATATATTCAAGAACAC
**
8834968 TAAATGAATATATTCAAGAATGC
1 TAAATGAATATATTCAAGAACAC
*
8834991 TAAATCAATAT
1 TAAATGAATAT
8835002 TGAACACTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (23 bp):
TAAATGAATATATTCAAGAACAC
Found at i:8836334 original size:46 final size:46
Alignment explanation
Indices: 8836237--8836336 Score: 121
Period size: 46 Copynumber: 2.2 Consensus size: 46
8836227 ACCACACATA
* * *
8836237 ACTCTAGCCTATCATAACATCATATACTTTGGATGAGACCTATATC
1 ACTCTAGCCTATCATAACATCATATACTTTGAATAAGACCTAGATC
* * *
8836283 ACTCTAGCTTATCATAACATCA-AGTATTTTGAATAAGACTTAGATC
1 ACTCTAGCCTATCATAACATCATA-TACTTTGAATAAGACCTAGATC
*
8836329 GCTCTAGC
1 ACTCTAGC
8836337 ATTAAGTACA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
45 1 0.02
46 45 0.98
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (46 bp):
ACTCTAGCCTATCATAACATCATATACTTTGAATAAGACCTAGATC
Found at i:8839522 original size:20 final size:20
Alignment explanation
Indices: 8839497--8839535 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8839487 TCGTTTTCTT
*
8839497 TAATGTTTCTTGATGGTTTC
1 TAATGTTTCTAGATGGTTTC
8839517 TAATGTTTCTAGATGGTTT
1 TAATGTTTCTAGATGGTTT
8839536 TTAAAGACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.08, G:0.21, T:0.54
Consensus pattern (20 bp):
TAATGTTTCTAGATGGTTTC
Found at i:8840753 original size:131 final size:131
Alignment explanation
Indices: 8840524--8840877 Score: 446
Period size: 131 Copynumber: 2.7 Consensus size: 131
8840514 ATCTTCTATC
* * * * * * *
8840524 GAGAAGAAACGACATCTCATGCCTTAAAGCAGCCA-TTCTTACTCCAATC-AAA-GAAAAAAATA
1 GAGAATAAATGACCTCTCATGCCTTAAAGAAGTCATTTATTACTCCAATCGAAATG-AAGAAATA
* * ** *
8840586 TTACTATTTCCTTCTAAAATTTGATATTAATTCGAGAGAAAACGATAATATCTAAGTATTTCCAA
65 TTACTATTTCATCCTAAAATTAAATATTAATCCGAGAGAAAACGATAATATCTAAGTATTTCCAA
8840651 TT
130 TT
*
8840653 GAGAATAAATGACCTCTCATGCCTTAAAGAAGTCATTTATTACTCCAATCGAAATGAAGAGATAT
1 GAGAATAAATGACCTCTCATGCCTTAAAGAAGTCATTTATTACTCCAATCGAAATGAAGAAATAT
* * *
8840718 TTCTATTTCGTCCTAAAATTAAATATTAATCCGAGAGAAAACGATAATATCTAATTATTTCCAAT
66 TACTATTTCATCCTAAAATTAAATATTAATCCGAGAGAAAACGATAATATCTAAGTATTTCCAAT
8840783 T
131 T
* * * * * * * *
8840784 TAGAATAAATGTCCTCTCATACCTTAAAGTATTCATTTATTACTCTAATCGAAATAAAGATATAT
1 GAGAATAAATGACCTCTCATGCCTTAAAGAAGTCATTTATTACTCCAATCGAAATGAAGAAATAT
*
8840849 TACTA-TTCATCCTAAAATTCAATATTAAT
66 TACTATTTCATCCTAAAATTAAATATTAAT
8840878 TCAAATGTTA
Statistics
Matches: 196, Mismatches: 26, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
129 30 0.15
130 35 0.18
131 130 0.66
132 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (131 bp):
GAGAATAAATGACCTCTCATGCCTTAAAGAAGTCATTTATTACTCCAATCGAAATGAAGAAATAT
TACTATTTCATCCTAAAATTAAATATTAATCCGAGAGAAAACGATAATATCTAAGTATTTCCAAT
T
Found at i:8841368 original size:25 final size:23
Alignment explanation
Indices: 8841331--8841380 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
8841321 TGACTAAAAT
* *
8841331 AAAATAACATAAAAGCAACATGCA
1 AAAATAAAAT-AAAGCAAAATGCA
8841355 AAAATTAAAATAAAGCAAAATGCA
1 AAAA-TAAAATAAAGCAAAATGCA
8841379 AA
1 AA
8841381 TAGGAATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.66, C:0.12, G:0.08, T:0.14
Consensus pattern (23 bp):
AAAATAAAATAAAGCAAAATGCA
Found at i:8841936 original size:108 final size:109
Alignment explanation
Indices: 8841720--8841972 Score: 298
Period size: 108 Copynumber: 2.3 Consensus size: 109
8841710 TCACTACACA
* * *
8841720 TGACCAAAATGCAAAAATACGCCTAAATAAGGGGGACTAAACAATAAATAATCCAAAAAATACAT
1 TGACCAACATGCAAAAACACGCCTAAATAAGGGGGACTAAACAACAAATAATCCAAAAAATACAT
* * **
8841785 AACAGACATGAAAATGAGTAAATAACAACTTTAGTCCCTATAGG
66 AACAGACATAAAAACGAGTAAATAACAACTCCAGTCCCTATAGG
* * * *
8841829 TGACCAACATGCAAAACCACG-CTAAACTATGGGGGACTAAACAACAAAT-ATCCCAAAAATATA
1 TGACCAACATGCAAAAACACGCCTAAA-TAAGGGGGACTAAACAACAAATAATCCAAAAAATACA
*
8841892 TAACATG-CATAAAAACGGGTAAATAACAACTCCAGT-CCTAATAGG
65 TAACA-GACATAAAAACGAGTAAATAACAACTCCAGTCCCT-ATAGG
* * * * *
8841937 TGACCAACATGTAAAAACGCGACTAACTTAGGGGGA
1 TGACCAACATGCAAAAACACGCCTAAATAAGGGGGA
8841973 TCTATGCGTG
Statistics
Matches: 122, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
107 3 0.02
108 76 0.62
109 43 0.35
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.18
Consensus pattern (109 bp):
TGACCAACATGCAAAAACACGCCTAAATAAGGGGGACTAAACAACAAATAATCCAAAAAATACAT
AACAGACATAAAAACGAGTAAATAACAACTCCAGTCCCTATAGG
Found at i:8842921 original size:3 final size:3
Alignment explanation
Indices: 8842915--8842989 Score: 77
Period size: 3 Copynumber: 25.7 Consensus size: 3
8842905 AAAAAGAAAA
* *
8842915 AAT AAT AAT -AT AAAT AA- AA- AAT AAA AAT AAT AAT -AG AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
8842957 AAT AAT AAT AAT AAT AAT AATT AAT ATT AAT AA
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AA
8842990 AATCAACAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
2 7 0.11
3 49 0.80
4 5 0.08
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8842947 original size:20 final size:20
Alignment explanation
Indices: 8842911--8842990 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 20
8842901 AGAAAAAAAG
8842911 AAAAAATAATAAT-ATAAAT
1 AAAAAATAATAATAATAAAT
*
8842930 AAAAAATAAAAATAAT-AAT
1 AAAAAATAATAATAATAAAT
*
8842949 AGAATAATAATAATAAT-AAT
1 A-AAAAATAATAATAATAAAT
*
8842969 AATAATAATTAATATTAATAAA
1 AA-AA-AA-TAATAATAATAAA
8842991 ATCAACAAGA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 17 0.34
20 20 0.40
21 2 0.04
22 9 0.18
23 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (20 bp):
AAAAAATAATAATAATAAAT
Found at i:8842954 original size:17 final size:17
Alignment explanation
Indices: 8842934--8842966 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8842924 ATAAATAAAA
8842934 AATAAAAATAATAATAG
1 AATAAAAATAATAATAG
*
8842951 AATAATAATAATAATA
1 AATAAAAATAATAATA
8842967 ATAATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (17 bp):
AATAAAAATAATAATAG
Found at i:8843503 original size:134 final size:135
Alignment explanation
Indices: 8843255--8843514 Score: 296
Period size: 134 Copynumber: 1.9 Consensus size: 135
8843245 GGAAATGTTT
* * * * * *
8843255 ATTCATTCCACTGTTTTTCAGGGAATATTGAATCGAGGCAAACTTGTTCCACTTCTTCTTCAGGG
1 ATTCACTCCACTGTTCTTCAGGGAAGATTGAATCGAGACAAACTTGTTCCACTTCTTCCTCAGAG
* *
8843320 AAGATCAAATCTATAAAAAGAGGATATGTTCCACTACTTCTTCAGGG-AAAATCAAATCTGGAGA
66 AAGATCAAATCTAAAAAAAGAGGATATGCTCCACTACTTCTTCAGGGAAAAATCAAATCTGGAGA
8843384 CGTTG
131 CGTTG
* * * *
8843389 ATTCACTCCATTGTTCTTCTGGGAAGATTGAATCGAGACAGAA-TTGTTCCAC-TGTTCCTCTGA
1 ATTCACTCCACTGTTCTTCAGGGAAGATTGAATCGAGACA-AACTTGTTCCACTTCTTCCTCAGA
* * * * *
8843452 GAAGATCAAATCTGGAAAAACAAG-GGATTTGCTCCGCTTCTTCTTTA-GGAAAAATCAGATCTG
65 GAAGATCAAATCT--AAAAA-AAGAGGATATGCTCCACTACTTCTTCAGGGAAAAATCAAATCTG
8843515 AAAGTTTTGG
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
133 20 0.19
134 45 0.43
135 36 0.35
136 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (135 bp):
ATTCACTCCACTGTTCTTCAGGGAAGATTGAATCGAGACAAACTTGTTCCACTTCTTCCTCAGAG
AAGATCAAATCTAAAAAAAGAGGATATGCTCCACTACTTCTTCAGGGAAAAATCAAATCTGGAGA
CGTTG
Found at i:8845652 original size:95 final size:95
Alignment explanation
Indices: 8845469--8845654 Score: 255
Period size: 95 Copynumber: 2.0 Consensus size: 95
8845459 TAGTAACCAA
*
8845469 TAGATTCCATGATCCATAAATCAGGAACAATCATATTTTCCAATGAAAACAGGAAACCAAATAAT
1 TAGATTCCATGATCCATAAATCAGGAACAATCATATTTTCCAATGAAAACAGGAAACCAAAGAAT
** * *
8845534 ATATTTCAGGTAACTATAGTTCATAAATAG
66 ATATACCAGGTAACCATAATTCATAAATAG
* * * * * *
8845564 TAGATTCCATGATCCATAAATTAGGAACTATTATATTTTCCAGTGAAAACAGGTAACCATAGAAT
1 TAGATTCCATGATCCATAAATCAGGAACAATCATATTTTCCAATGAAAACAGGAAACCAAAGAAT
* *
8845629 ATATACCATGTAGCCATAATTCATAA
66 ATATACCAGGTAACCATAATTCATAA
8845655 GCCAGCAAAT
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
95 78 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (95 bp):
TAGATTCCATGATCCATAAATCAGGAACAATCATATTTTCCAATGAAAACAGGAAACCAAAGAAT
ATATACCAGGTAACCATAATTCATAAATAG
Found at i:8847453 original size:14 final size:14
Alignment explanation
Indices: 8847434--8847466 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
8847424 AAGTAAATGG
8847434 GTTGACTCGGATAA
1 GTTGACTCGGATAA
*
8847448 GTTGACTCGGATGA
1 GTTGACTCGGATAA
8847462 GTTGA
1 GTTGA
8847467 TTTAGACGAG
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:0.24, C:0.12, G:0.33, T:0.30
Consensus pattern (14 bp):
GTTGACTCGGATAA
Found at i:8856240 original size:349 final size:349
Alignment explanation
Indices: 8855599--8856296 Score: 1333
Period size: 349 Copynumber: 2.0 Consensus size: 349
8855589 ATTTATTCTG
8855599 AAAGTAAAATAACCCTACAAAAATTAAAAGACTAAAAAAGGCTTTTCCTTGTGTACTCTCCTCAC
1 AAAGTAAAATAACCCTACAAAAATTAAAAGACTAAAAAAGGCTTTTCCTTGTGTACTCTCCTCAC
*
8855664 GGGATTCTTAAGGTTTGGGTTAGACTTTATCTAGGTTCTAGGTTCTAAGTTCATTATATGCTGGG
66 GGGATTCTTAAGGTTTGGGTTAGACTTTATATAGGTTCTAGGTTCTAAGTTCATTATATGCTGGG
8855729 TTTGGATCCAAAGTAAAATGTTCTCGAATTGTCCTTGTCGGTGCCCCCTTAGGCTGCCAAACCAT
131 TTTGGATCCAAAGTAAAATGTTCTCGAATTGTCCTTGTCGGTGCCCCCTTAGGCTGCCAAACCAT
8855794 CAATCCTGACCCATCACAGGCTTTCGGATCAAGTTCAATTCGAGGGGACACACCTCCTTATGTAT
196 CAATCCTGACCCATCACAGGCTTTCGGATCAAGTTCAATTCGAGGGGACACACCTCCTTATGTAT
* * *
8855859 ATACAGAGGTGAAAACCATCACAAGGACCATAAGGCGTGAGCCCCAGGAGTGATCCACTATCCCT
261 ATACAGAGGTAAAAACCATCACAAGAACCATAAGGCGTGAGCCCCAGGAGTGATCCACAATCCCT
8855924 TACGGAGGTGAAAACCATAGAAGT
326 TACGGAGGTGAAAACCATAGAAGT
8855948 AAAGTAAAATAACCCTACAAAAATTAAAAGACTAAAAAAGGCTTTTCCTTGTGTACTCTCCTCAC
1 AAAGTAAAATAACCCTACAAAAATTAAAAGACTAAAAAAGGCTTTTCCTTGTGTACTCTCCTCAC
8856013 GGGATTCTTAAGGTTTGGGTTAGACTTTATATAGGTTCTAGGTTCTAAGTTCATTATATGCTGGG
66 GGGATTCTTAAGGTTTGGGTTAGACTTTATATAGGTTCTAGGTTCTAAGTTCATTATATGCTGGG
8856078 TTTGGATCCAAAGTAAAATGTTCTCGAATTGTCCTTGTCGGTGCCCCCTTAGGCTGCCAAACCAT
131 TTTGGATCCAAAGTAAAATGTTCTCGAATTGTCCTTGTCGGTGCCCCCTTAGGCTGCCAAACCAT
*
8856143 CAATCCTGACCCATCACAGGCTTTCGGATCAAGTTCAATTCGAGGGGACACACCTCCTTATGTCT
196 CAATCCTGACCCATCACAGGCTTTCGGATCAAGTTCAATTCGAGGGGACACACCTCCTTATGTAT
* *
8856208 ATACAGAGGTAAAAATCATCACAAGAACCATAAGGCGTGAGCCCTAGGAGTGATCCACAATCCCT
261 ATACAGAGGTAAAAACCATCACAAGAACCATAAGGCGTGAGCCCCAGGAGTGATCCACAATCCCT
8856273 TACGGAGGTGAAAACCATAGAAGT
326 TACGGAGGTGAAAACCATAGAAGT
8856297 GAGTAGTTTC
Statistics
Matches: 342, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
349 342 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (349 bp):
AAAGTAAAATAACCCTACAAAAATTAAAAGACTAAAAAAGGCTTTTCCTTGTGTACTCTCCTCAC
GGGATTCTTAAGGTTTGGGTTAGACTTTATATAGGTTCTAGGTTCTAAGTTCATTATATGCTGGG
TTTGGATCCAAAGTAAAATGTTCTCGAATTGTCCTTGTCGGTGCCCCCTTAGGCTGCCAAACCAT
CAATCCTGACCCATCACAGGCTTTCGGATCAAGTTCAATTCGAGGGGACACACCTCCTTATGTAT
ATACAGAGGTAAAAACCATCACAAGAACCATAAGGCGTGAGCCCCAGGAGTGATCCACAATCCCT
TACGGAGGTGAAAACCATAGAAGT
Found at i:8857388 original size:131 final size:131
Alignment explanation
Indices: 8857229--8857588 Score: 452
Period size: 131 Copynumber: 2.7 Consensus size: 131
8857219 ATTATCTTCT
* ** * * * * *
8857229 ATCGAGAAGAAACAACCTCTCATGCCTTAGAGCAATCATTTTTTACTCCAATCAAAATAAAGAAA
1 ATCGAGAATAAATGACCTCTCATACCTTAAAGCAGTCATTTATTACTCCAATCAAAATAAAGAGA
* * *
8857294 TATTACTATTTCCTTATAAAATTTGAA-ATTAATTTGAGAGAAAACGATAATATCTAAGTATTTC
66 TATTACTATTTCCTTATAAAA-TTAAATATTAATCTGAGAGAAAACGATAATATCCAAGTATTTC
8857358 CA
130 CA
* * * *
8857360 ATTGAGAATAAATGACCTCTCATACCTTAAAGCAGTTATTTAATACTCCAATCGAAATAAAGAGA
1 ATCGAGAATAAATGACCTCTCATACCTTAAAGCAGTCATTTATTACTCCAATCAAAATAAAGAGA
* * * * * *
8857425 TATTACTATTTCGTTCTACAATTAAATATTAATCTGAGAGAAAATGATAATATCCAATTATTTTC
66 TATTACTATTTCCTTATAAAATTAAATATTAATCTGAGAGAAAACGATAATATCCAAGTATTTCC
8857490 A
131 A
* * *
8857491 ATCGAGAATAAATGATCTCTCATACCTTAAAGTAGTCATTTATTACTCCAATCAAAATGAAGAGA
1 ATCGAGAATAAATGACCTCTCATACCTTAAAGCAGTCATTTATTACTCCAATCAAAATAAAGAGA
* ** *
8857556 TATTACTATTTCATCCTAAAATTCAATATTAAT
66 TATTACTATTTCCTTATAAAATTAAATATTAAT
8857589 TCGAATATTA
Statistics
Matches: 196, Mismatches: 32, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
130 4 0.02
131 192 0.98
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (131 bp):
ATCGAGAATAAATGACCTCTCATACCTTAAAGCAGTCATTTATTACTCCAATCAAAATAAAGAGA
TATTACTATTTCCTTATAAAATTAAATATTAATCTGAGAGAAAACGATAATATCCAAGTATTTCC
A
Found at i:8857946 original size:24 final size:24
Alignment explanation
Indices: 8857900--8857949 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
8857890 TGAGTAAAAT
* *
8857900 AAAATAACATAAAAGCAACATGCA
1 AAAATAAAATAAAAGCAAAATGCA
8857924 AAAATTAAAATAAAA-CAAAATGCA
1 AAAA-TAAAATAAAAGCAAAATGCA
8857948 AA
1 AA
8857950 TAGGACTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.68, C:0.12, G:0.06, T:0.14
Consensus pattern (24 bp):
AAAATAAAATAAAAGCAAAATGCA
Found at i:8863616 original size:19 final size:20
Alignment explanation
Indices: 8863592--8863631 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
8863582 AAAATGTTTT
*
8863592 TATGAATAGTA-CTATATTG
1 TATGAATAGTATCGATATTG
8863611 TATGAATAGTATCGATATTG
1 TATGAATAGTATCGATATTG
8863631 T
1 T
8863632 GTAAATAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.42
Consensus pattern (20 bp):
TATGAATAGTATCGATATTG
Found at i:8863638 original size:20 final size:19
Alignment explanation
Indices: 8863596--8863640 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
8863586 TGTTTTTATG
* *
8863596 AATAGTACTATATTGTATG
1 AATAGTACGATATTGTATA
*
8863615 AATAGTATCGATATTGTGTA
1 AATAGTA-CGATATTGTATA
8863635 AATAGT
1 AATAGT
8863641 TCTGTGAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (19 bp):
AATAGTACGATATTGTATA
Found at i:8863669 original size:21 final size:21
Alignment explanation
Indices: 8863643--8863694 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
8863633 TAAATAGTTC
8863643 TGTGAACAGTATTGAAC-ATAT
1 TGTGAACAGTA-TGAACAATAT
*
8863664 TGTGAACATTATGAACAATAT
1 TGTGAACAGTATGAACAATAT
*
8863685 CGTGAACAGT
1 TGTGAACAGT
8863695 GTACCGATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (21 bp):
TGTGAACAGTATGAACAATAT
Found at i:8864303 original size:23 final size:23
Alignment explanation
Indices: 8864277--8864349 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
8864267 AGCTCGTATA
*
8864277 AATTACACCGAAGTGCCACATAG
1 AATTGCACCGAAGTGCCACATAG
* *
8864300 AATTGCACCGAAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACATAG
* * * *
8864323 AGTTGCACCGTAGTGCCATATAA
1 AATTGCACCGAAGTGCCACATAG
8864346 AATT
1 AATT
8864350 TGTCCATAAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACATAG
Found at i:8866667 original size:65 final size:64
Alignment explanation
Indices: 8866466--8866675 Score: 173
Period size: 65 Copynumber: 3.2 Consensus size: 64
8866456 TGCACTAAGA
* * * * * *
8866466 GTGCATCGATACATCAAGTGCATTAGATGTTTCA-AAATAGC-CAAAGTGTATCGATGCAT-GTC
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGGTA
8866528 TG
63 TG
*
8866530 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGTAT
8866595 -
64 G
* * * **
8866595 GTACATCGATGCATGAAATTCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGG-A
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGGTA
8866657 TTG
63 -TG
*
8866660 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
8866676 TTCTGAAAAA
Statistics
Matches: 120, Mismatches: 16, Indels: 19
0.77 0.10 0.12
Matches are distributed among these distances:
62 3 0.03
63 4 0.03
64 47 0.39
65 58 0.48
66 7 0.06
67 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGTATG
Found at i:8867711 original size:21 final size:21
Alignment explanation
Indices: 8867687--8867730 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
8867677 GAGCTGGAGG
* *
8867687 AGGAGGAGCACGAGAGGAGCT
1 AGGAGCAGCACGAGAGGAACT
* *
8867708 AGGAGCAGCTCGTGAGGAACT
1 AGGAGCAGCACGAGAGGAACT
8867729 AG
1 AG
8867731 CTCCCGGAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.43, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAGGAACT
Done.