Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 7 of 250
Found at i:2011060 original size:15 final size:15
Alignment explanation
Indices: 2011040--2011105 Score: 87
Period size: 15 Copynumber: 4.4 Consensus size: 15
2011030 ATGTGATTTA
2011040 ATATGTGCAAACCCT
1 ATATGTGCAAACCCT
* *
2011055 ATATGTACAAACCTT
1 ATATGTGCAAACCCT
* *
2011070 ATATGTGCGAACCTT
1 ATATGTGCAAACCCT
*
2011085 TTATGTGCAAACCCT
1 ATATGTGCAAACCCT
2011100 ATATGT
1 ATATGT
2011106 AAACTTGTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (15 bp):
ATATGTGCAAACCCT
Found at i:2017079 original size:5 final size:5
Alignment explanation
Indices: 2017069--2017102 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
2017059 CTTATACTTG
2017069 CTATA CTATA CTATA CTATA CTATA CTATA CTAT
1 CTATA CTATA CTATA CTATA CTATA CTATA CTAT
2017103 TCCTTGGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (5 bp):
CTATA
Found at i:2019376 original size:7 final size:6
Alignment explanation
Indices: 2019342--2019375 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
2019332 TCCTTAGTTC
2019342 TTTTC- TTTTCTT TTTTCT TTTTCT TTTTCT TTTT
1 TTTTCT TTTTC-T TTTTCT TTTTCT TTTTCT TTTT
2019376 TTATTATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 17 0.63
7 5 0.19
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:2019428 original size:13 final size:13
Alignment explanation
Indices: 2019410--2019445 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 13
2019400 AACATCATCA
2019410 CCTTTATCACCAC
1 CCTTTATCACCAC
2019423 CCTTTATCGCACCAC
1 CCTTTAT--CACCAC
2019438 CCTTTATC
1 CCTTTATC
2019446 GCCCACCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 8 0.38
15 13 0.62
ACGTcount: A:0.19, C:0.44, G:0.03, T:0.33
Consensus pattern (13 bp):
CCTTTATCACCAC
Found at i:2019437 original size:15 final size:15
Alignment explanation
Indices: 2019417--2019452 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
2019407 TCACCTTTAT
2019417 CACCACCCTTTATCG
1 CACCACCCTTTATCG
2019432 CACCACCCTTTATCG
1 CACCACCCTTTATCG
2019447 C-CCACC
1 CACCACC
2019453 ACTGTCACGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.19, C:0.53, G:0.06, T:0.22
Consensus pattern (15 bp):
CACCACCCTTTATCG
Found at i:2025105 original size:37 final size:37
Alignment explanation
Indices: 2025055--2025166 Score: 124
Period size: 37 Copynumber: 3.0 Consensus size: 37
2025045 ATTCTAGAAA
* *
2025055 AATATTATTTTAATAGTTTAATATTAAATTAA-ATTT
1 AATATTATCTTAATAGTTTAATATTAATTTAATATTT
* *
2025091 AATACTTATCTTAATAGTATT-TTATTAATTTAATATTA
1 AATA-TTATCTTAATAGT-TTAATATTAATTTAATATTT
2025129 AAGTGATTATCTTAATA-TTTAAT-TTAATTTAATATTT
1 AA-T-ATTATCTTAATAGTTTAATATTAATTTAATATTT
2025166 A
1 A
2025167 TCTTGTAGAT
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
36 4 0.06
37 38 0.59
38 9 0.14
39 12 0.19
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (37 bp):
AATATTATCTTAATAGTTTAATATTAATTTAATATTT
Found at i:2025168 original size:68 final size:68
Alignment explanation
Indices: 2025071--2025268 Score: 191
Period size: 62 Copynumber: 3.0 Consensus size: 68
2025061 ATTTTAATAG
* * *
2025071 TTTAATATTAAATTAAATTTAATACTTATCTTAAT-AGTATTTTATTAATTTAATATTAAAGTGA
1 TTTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGA
2025135 TTA
66 TTA
* * * *
2025138 TCTTAATATTTAATTTAATTTAATATTTATCTTGTAGATAAGCATTCTATT-ATTT--TAAT-AA
1 T-TTAATATTAAATTTAATTTAATATTTATC-T-TA-ATAAGTATTATATTAATTTAATATTAAA
2025199 --G---A
62 GTGATTA
* * * *
2025201 TTTAATATTAAATTTAATCTAGTATTTATCTTGATAAATATTATATTAATTTAATATTAAAGTGA
1 TTTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGA
2025266 TTA
66 TTA
2025269 AGTTTGATTA
Statistics
Matches: 103, Mismatches: 14, Indels: 27
0.72 0.10 0.19
Matches are distributed among these distances:
59 11 0.11
60 5 0.05
61 1 0.01
62 29 0.28
63 4 0.04
65 1 0.01
66 1 0.01
67 1 0.01
68 29 0.28
69 4 0.04
70 2 0.02
71 6 0.06
72 9 0.09
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.51
Consensus pattern (68 bp):
TTTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGA
TTA
Found at i:2041127 original size:17 final size:18
Alignment explanation
Indices: 2041102--2041135 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2041092 TAATTCTTAA
2041102 AAATAAAAA-GATAAAAG
1 AAATAAAAAGGATAAAAG
*
2041119 AAATTAAAAGGATAAAA
1 AAATAAAAAGGATAAAA
2041136 TTAAGTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.15
Consensus pattern (18 bp):
AAATAAAAAGGATAAAAG
Found at i:2041245 original size:27 final size:25
Alignment explanation
Indices: 2041215--2041283 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 25
2041205 GATTTTCTGA
2041215 AAAAAATAAAATAAAATCAATTCTAAT
1 AAAAAATAAAATAAAATCAATT-T-AT
* * *
2041242 AAAAAAGGAAAAGAAAAATTAATTTAT
1 AAAAAA-TAAAA-TAAAATCAATTTAT
2041269 AAAAATATAAAATAA
1 AAAAA-ATAAAATAA
2041284 GTGACCATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
26 2 0.06
27 17 0.50
28 6 0.18
29 9 0.26
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.23
Consensus pattern (25 bp):
AAAAAATAAAATAAAATCAATTTAT
Found at i:2041664 original size:16 final size:16
Alignment explanation
Indices: 2041645--2041675 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2041635 CATTTTAGAG
2041645 CATATAAATTTAAAAT
1 CATATAAATTTAAAAT
*
2041661 CATATATATTTAAAA
1 CATATAAATTTAAAA
2041676 ACTTTTTCAA
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:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (16 bp):
CATATAAATTTAAAAT
Found at i:2041835 original size:18 final size:19
Alignment explanation
Indices: 2041814--2041849 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2041804 TTTTGAAAAA
*
2041814 ATAAAT-TTTTGAATTTTT
1 ATAAATATTTTAAATTTTT
2041832 ATAAATATTTTAAATTTT
1 ATAAATATTTTAAATTTT
2041850 AAAAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
ATAAATATTTTAAATTTTT
Found at i:2041842 original size:19 final size:19
Alignment explanation
Indices: 2041814--2041866 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
2041804 TTTTGAAAAA
2041814 ATAAAT-TTTTGAATTTTT
1 ATAAATATTTTGAATTTTT
*
2041832 ATAAATATTTT-AAATTTT
1 ATAAATATTTTGAATTTTT
*
2041850 AAAAATTATTTTGAATT
1 ATAAA-TATTTTGAATT
2041867 CTTGAAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 16 0.55
19 10 0.34
20 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (19 bp):
ATAAATATTTTGAATTTTT
Found at i:2042675 original size:21 final size:22
Alignment explanation
Indices: 2042650--2042695 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
2042640 TTGCATTGTA
* *
2042650 AAAATT-AAATTTTTTTTTTTT
1 AAAATTAAAATTTTGTTTTATT
2042671 AAAATTCAAAATTTTGTTTTATT
1 AAAATT-AAAATTTTGTTTTATT
2042694 AA
1 AA
2042696 TTATGGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
23 15 0.71
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
AAAATTAAAATTTTGTTTTATT
Found at i:2045457 original size:15 final size:15
Alignment explanation
Indices: 2045437--2045470 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
2045427 GATTTAGTAG
2045437 TAGTCAGTGCATGCT
1 TAGTCAGTGCATGCT
2045452 TAGTCAGTGCATGCT
1 TAGTCAGTGCATGCT
2045467 TAGT
1 TAGT
2045471 AAGATAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (15 bp):
TAGTCAGTGCATGCT
Found at i:2046855 original size:23 final size:24
Alignment explanation
Indices: 2046829--2046873 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
2046819 TATTAGAAAA
*
2046829 AATTAAATTAAATTAAA-ATATAT
1 AATTAAATTAAAATAAAGATATAT
* *
2046852 AATTTAGTTAAAATAAAGATAT
1 AATTAAATTAAAATAAAGATAT
2046874 GGTAATGGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
AATTAAATTAAAATAAAGATATAT
Found at i:2047968 original size:85 final size:85
Alignment explanation
Indices: 2047865--2048075 Score: 246
Period size: 85 Copynumber: 2.5 Consensus size: 85
2047855 CAATGATGTG
** * *
2047865 CTATTTGTGATAGCATAATTGCTTCAGTTTACCTAATGATGCAATTACGTGCTAATATATTTTCT
1 CTATTTGTGCCAGTATAATTGCTTCAGTTTACCCAATGATGCAATTACGTGCTAATATATTTTCT
* * *
2047930 CCATTATATCCGGTGATGCA
66 CCAATACATCCGATGATGCA
* ** *
2047950 CTATTTGTGCCAGTATAATTACTTTGGTTTACCCAATGATGCATTTACGTGCTAATATATTTTCT
1 CTATTTGTGCCAGTATAATTGCTTCAGTTTACCCAATGATGCAATTACGTGCTAATATATTTTCT
**
2048015 TTAATACATCCGATGATGCA
66 CCAATACATCCGATGATGCA
** * * *
2048035 CT-TACGTGCCAGTATATTTGCTTCA-TTTATCCGATGATGCA
1 CTATTTGTGCCAGTATAATTGCTTCAGTTTACCCAATGATGCA
2048076 CTATACATGC
Statistics
Matches: 105, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
83 14 0.13
84 17 0.16
85 74 0.70
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.40
Consensus pattern (85 bp):
CTATTTGTGCCAGTATAATTGCTTCAGTTTACCCAATGATGCAATTACGTGCTAATATATTTTCT
CCAATACATCCGATGATGCA
Found at i:2048033 original size:42 final size:41
Alignment explanation
Indices: 2047985--2048091 Score: 124
Period size: 42 Copynumber: 2.6 Consensus size: 41
2047975 GGTTTACCCA
* * *
2047985 ATGATGCATTTACGTGCTAATATATTTTCTTTAATACATCCG
1 ATGATGCACTTACGTGCCAATATATTTGC-TTAATACATCCG
* * **
2048027 ATGATGCACTTACGTGCCAGTATATTTGCTTCATTTATCCG
1 ATGATGCACTTACGTGCCAATATATTTGCTTAATACATCCG
*
2048068 ATGATGCACTATACATGCCAATAT
1 ATGATGCACT-TACGTGCCAATAT
2048092 TGTAACACCC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 19 0.35
42 36 0.65
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (41 bp):
ATGATGCACTTACGTGCCAATATATTTGCTTAATACATCCG
Found at i:2076511 original size:15 final size:16
Alignment explanation
Indices: 2076482--2076512 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2076472 ATTGCTTACC
2076482 ATATGCAATCAATTTA
1 ATATGCAATCAATTTA
2076498 ATATGCAA-CAATTTA
1 ATATGCAATCAATTTA
2076513 TCATTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (16 bp):
ATATGCAATCAATTTA
Found at i:2082061 original size:27 final size:27
Alignment explanation
Indices: 2082031--2082095 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
2082021 AGCAATCTTG
2082031 TGTTTAATGTCCCAACAGACTATCCCA
1 TGTTTAATGTCCCAACAGACTATCCCA
*** *
2082058 TGTTT-ATCGTCCCGGTAGGCTATCCCA
1 TGTTTAAT-GTCCCAACAGACTATCCCA
*
2082085 TGTTTAGTGTC
1 TGTTTAATGTC
2082096 ATGGTAGACT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
26 2 0.06
27 28 0.90
28 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.35
Consensus pattern (27 bp):
TGTTTAATGTCCCAACAGACTATCCCA
Found at i:2082101 original size:27 final size:28
Alignment explanation
Indices: 2082047--2082119 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 28
2082037 ATGTCCCAAC
*
2082047 AGACTATCCCATGTTTA-TCGTCCCGGT
1 AGACTATCCCATGTTTAGTCGTCACGGT
* *
2082074 AGGCTATCCCATGTTTAGT-GTCATGGT
1 AGACTATCCCATGTTTAGTCGTCACGGT
*
2082101 AGACTATCCCGTGTTTAGT
1 AGACTATCCCATGTTTAGT
2082120 ATCTCGATAG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 39 0.98
28 1 0.03
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (28 bp):
AGACTATCCCATGTTTAGTCGTCACGGT
Found at i:2082130 original size:27 final size:27
Alignment explanation
Indices: 2082077--2082133 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
2082067 TCCCGGTAGG
* *
2082077 CTATCCCATGTTTAGTGTCATGGTAGA
1 CTATCCCATGTTTAGTATCATGATAGA
*
2082104 CTATCCCGTGTTTAGTATC-TCGATAGA
1 CTATCCCATGTTTAGTATCAT-GATAGA
2082131 CTA
1 CTA
2082134 CCAAAAGATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (27 bp):
CTATCCCATGTTTAGTATCATGATAGA
Found at i:2085087 original size:63 final size:63
Alignment explanation
Indices: 2084977--2085130 Score: 233
Period size: 63 Copynumber: 2.5 Consensus size: 63
2084967 TTTCAAGTCA
* ** *
2084977 TTTTCATTTTCATTTT--TTTTGGAGAAAATTACTTTCATTTCAAAATGATTTTATTTCTCTT
1 TTTTCATTTTCATTTTCATTTTGGAGAAAATCACTTAAATTTCAAAATGATTTTATTTCTCAT
2085038 TTTTCATTTTCATTTTCATTTTGGAGAAAATCACTTAAATTTTC-AAATGATTTTATTTCTCAT
1 TTTTCATTTTCATTTTCATTTTGGAGAAAATCACTTAAA-TTTCAAAATGATTTTATTTCTCAT
*
2085101 TTTTCTTTTTCATTTTCATTTTGGAGAAAA
1 TTTTCATTTTCATTTTCATTTTGGAGAAAA
2085131 CCATAATCAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
61 16 0.19
63 65 0.76
64 4 0.05
ACGTcount: A:0.26, C:0.12, G:0.07, T:0.55
Consensus pattern (63 bp):
TTTTCATTTTCATTTTCATTTTGGAGAAAATCACTTAAATTTCAAAATGATTTTATTTCTCAT
Found at i:2085148 original size:63 final size:63
Alignment explanation
Indices: 2084977--2085153 Score: 213
Period size: 63 Copynumber: 2.9 Consensus size: 63
2084967 TTTCAAGTCA
** * * *
2084977 TTTTCATTTTCATTTT--TTTTGGAGAAAATTACT-TTCATTTCAAAATGATTTTATTTCTCTT
1 TTTTCATTTTCATTTTCATTTTGGAGAAAACCA-TAATCATTTCCAAATGATTTTATTTCTCAT
* *
2085038 TTTTCATTTTCATTTTCATTTTGGAGAAAATCACTTAA--ATTTTCAAATGATTTTATTTCTCAT
1 TTTTCATTTTCATTTTCATTTTGGAGAAAA-C-CATAATCATTTCCAAATGATTTTATTTCTCAT
*
2085101 TTTTCTTTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATG-TTTT
1 TTTTCATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTT
2085154 CCATTTTTTT
Statistics
Matches: 99, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
61 20 0.20
62 5 0.05
63 73 0.74
64 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.54
Consensus pattern (63 bp):
TTTTCATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTTATTTCTCAT
Found at i:2090722 original size:27 final size:27
Alignment explanation
Indices: 2090692--2090756 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
2090682 AGCAATCTTG
2090692 TGTTTAATGTCCCAACAGACTATCCCA
1 TGTTTAATGTCCCAACAGACTATCCCA
*** *
2090719 TGTTT-ATCGTCCCGGTAGGCTATCCCA
1 TGTTTAAT-GTCCCAACAGACTATCCCA
*
2090746 TGTTTAGTGTC
1 TGTTTAATGTC
2090757 ATGGTAGACT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
26 2 0.06
27 28 0.90
28 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.35
Consensus pattern (27 bp):
TGTTTAATGTCCCAACAGACTATCCCA
Found at i:2090762 original size:27 final size:28
Alignment explanation
Indices: 2090708--2090780 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 28
2090698 ATGTCCCAAC
*
2090708 AGACTATCCCATGTTTA-TCGTCCCGGT
1 AGACTATCCCATGTTTAGTCGTCACGGT
* *
2090735 AGGCTATCCCATGTTTAGT-GTCATGGT
1 AGACTATCCCATGTTTAGTCGTCACGGT
*
2090762 AGACTATCCCGTGTTTAGT
1 AGACTATCCCATGTTTAGT
2090781 ATCTCGATAG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 39 0.98
28 1 0.03
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (28 bp):
AGACTATCCCATGTTTAGTCGTCACGGT
Found at i:2090791 original size:27 final size:27
Alignment explanation
Indices: 2090738--2090794 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
2090728 TCCCGGTAGG
* *
2090738 CTATCCCATGTTTAGTGTCATGGTAGA
1 CTATCCCATGTTTAGTATCATGATAGA
*
2090765 CTATCCCGTGTTTAGTATC-TCGATAGA
1 CTATCCCATGTTTAGTATCAT-GATAGA
2090792 CTA
1 CTA
2090795 CCAAAAGATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (27 bp):
CTATCCCATGTTTAGTATCATGATAGA
Found at i:2093749 original size:63 final size:63
Alignment explanation
Indices: 2093639--2093792 Score: 233
Period size: 63 Copynumber: 2.5 Consensus size: 63
2093629 TTTCAAGTCA
* ** *
2093639 TTTTCATTTTCATTTT--TTTTGGAGAAAATTACTTTCATTTCAAAATGATTTTATTTCTCTT
1 TTTTCATTTTCATTTTCATTTTGGAGAAAATCACTTAAATTTCAAAATGATTTTATTTCTCAT
2093700 TTTTCATTTTCATTTTCATTTTGGAGAAAATCACTTAAATTTTC-AAATGATTTTATTTCTCAT
1 TTTTCATTTTCATTTTCATTTTGGAGAAAATCACTTAAA-TTTCAAAATGATTTTATTTCTCAT
*
2093763 TTTTCTTTTTCATTTTCATTTTGGAGAAAA
1 TTTTCATTTTCATTTTCATTTTGGAGAAAA
2093793 CCATAATCAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
61 16 0.19
63 65 0.76
64 4 0.05
ACGTcount: A:0.26, C:0.12, G:0.07, T:0.55
Consensus pattern (63 bp):
TTTTCATTTTCATTTTCATTTTGGAGAAAATCACTTAAATTTCAAAATGATTTTATTTCTCAT
Found at i:2093810 original size:63 final size:63
Alignment explanation
Indices: 2093639--2093815 Score: 213
Period size: 63 Copynumber: 2.9 Consensus size: 63
2093629 TTTCAAGTCA
** * * *
2093639 TTTTCATTTTCATTTT--TTTTGGAGAAAATTACT-TTCATTTCAAAATGATTTTATTTCTCTT
1 TTTTCATTTTCATTTTCATTTTGGAGAAAACCA-TAATCATTTCCAAATGATTTTATTTCTCAT
* *
2093700 TTTTCATTTTCATTTTCATTTTGGAGAAAATCACTTAA--ATTTTCAAATGATTTTATTTCTCAT
1 TTTTCATTTTCATTTTCATTTTGGAGAAAA-C-CATAATCATTTCCAAATGATTTTATTTCTCAT
*
2093763 TTTTCTTTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATG-TTTT
1 TTTTCATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTT
2093816 CCATTTTTTT
Statistics
Matches: 99, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
61 20 0.20
62 5 0.05
63 73 0.74
64 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.54
Consensus pattern (63 bp):
TTTTCATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTTATTTCTCAT
Found at i:2111491 original size:17 final size:17
Alignment explanation
Indices: 2111469--2111501 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2111459 GATATGATAC
2111469 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
2111486 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
2111502 AATAAGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:2111502 original size:18 final size:17
Alignment explanation
Indices: 2111469--2111502 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2111459 GATATGATAC
*
2111469 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
2111486 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
2111503 ATAAGGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:2111817 original size:19 final size:19
Alignment explanation
Indices: 2111789--2111860 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
2111779 AATCATATCT
2111789 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
2111808 TCTAAAATTG--TATCA-A
1 TCTAAGATTGCATATCATA
*
2111824 TCTAAGATTGCATATTATA
1 TCTAAGATTGCATATCATA
2111843 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
2111861 TGAAGATTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
16 10 0.22
17 5 0.11
18 4 0.09
19 27 0.59
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:2111868 original size:17 final size:19
Alignment explanation
Indices: 2111792--2111868 Score: 74
Period size: 19 Copynumber: 4.3 Consensus size: 19
2111782 CATATCTTCT
*
2111792 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
* *
2111811 AAAATTG--TATCA-ATCT
1 AAGATTGCATATCATATCG
* *
2111827 AAGATTGCATATTATATCT
1 AAGATTGCATATCATATCG
2111846 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
2111863 AAGATT
1 AAGATT
2111869 ATATTTCCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
16 10 0.20
17 11 0.22
18 5 0.10
19 24 0.48
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.38
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:2112016 original size:21 final size:19
Alignment explanation
Indices: 2111979--2112017 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
2111969 TTGGACTTCG
*
2111979 TTTTTTTTTTAGTTTATTA
1 TTTTTTTTTTAGCTTATTA
2111998 TTTTTGTTTTTAGACTTATT
1 TTTTT-TTTTTAG-CTTATT
2112018 TCTTAGCCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 7 0.41
21 5 0.29
ACGTcount: A:0.15, C:0.03, G:0.08, T:0.74
Consensus pattern (19 bp):
TTTTTTTTTTAGCTTATTA
Found at i:2112766 original size:81 final size:81
Alignment explanation
Indices: 2112638--2112789 Score: 279
Period size: 81 Copynumber: 1.9 Consensus size: 81
2112628 ATCTTAAAGG
*
2112638 TTTCTTAATTTCTCCAAGATTGGGTTTCTCTTTCAACACAAGCTCAAGAATTCTATGGGTGGCAT
1 TTTCTTAACTTCTCCAAGATTGGGTTTCTCTTTCAACACAAGCTCAAGAATTCTATGGGTGGCAT
2112703 AAAAAAAATTTAAACA
66 AAAAAAAATTTAAACA
2112719 TTTCTTAACTTCTCCAAGATTGGGTTTCTCTTTCAA-AGCAAGCTCAAGAATTCTATGGGTGGCA
1 TTTCTTAACTTCTCCAAGATTGGGTTTCTCTTTCAACA-CAAGCTCAAGAATTCTATGGGTGGCA
2112783 TAAAAAA
65 TAAAAAA
2112790 TTCAGTGTTG
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
80 1 0.01
81 68 0.99
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (81 bp):
TTTCTTAACTTCTCCAAGATTGGGTTTCTCTTTCAACACAAGCTCAAGAATTCTATGGGTGGCAT
AAAAAAAATTTAAACA
Found at i:2115627 original size:3 final size:3
Alignment explanation
Indices: 2115619--2115647 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2115609 AAAAGGTCTG
2115619 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
2115648 AATATCTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:2118043 original size:130 final size:128
Alignment explanation
Indices: 2117785--2118194 Score: 422
Period size: 130 Copynumber: 3.2 Consensus size: 128
2117775 TTGCCACTAA
* * *
2117785 CAAGAGTGAAGATTGAATCTTCGAGCTGTTTAACCTTTGATTTT-TATTTTCAGAAAAG-AAAAG
1 CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTTGTATTATCAGAAAAGAAAAAG
* * *
2117848 --AGAAGGCCTGCTTGGTCCCTTTACCTAAGAAAATGCTCTTCCTGATTGGTATTCAATCACCAG
66 AAAAAAGGCCTGCTTGGTCCC--TACCTAAGAAAATACTCTTCCTGATTGATATTCAATCACCAG
2117911 CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTTGTATTATCAGAAAAAGAAAGA
1 CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTTGTATTATCAG-AAAAGAAA-A
* * * *
2117976 AGAAAAAAGGCCTGCTTGGTGCCC-ATCTAAGAAATTACTCTTGCTGATTGATATTCGATCACCA
64 AGAAAAAAGGCCTGCTTGGT-CCCTACCTAAGAAAATACTCTTCCTGATTGATATTCAATCACCA
2118040 G
128 G
* * * * * *
2118041 CAAGGGTAAAGATTGAATCTTTGAGCTGTTTAACCTTTGC-TTAGAATTCTCAGGAAAAGAAAAG
1 CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTTGTATTATCA-GAAAAGAAAAA
* * * *** * ** * *
2118105 GAAAAAAGGCCAT-CTTGTTGTCCGTGCCT-AGAAAATGCTCCAGCTGATTGGTGGTCAACCACT
65 GAAAAAAGGCC-TGCTTG--GTCCCTACCTAAGAAAATACTCTTCCTGATTGATATTCAATCACC
2118168 AG
127 AG
* *
2118170 CAAGAGCAAACATTGAATCTTCGAG
1 CAAGAGTAAAGATTGAATCTTCGAG
2118195 TAACAAAATT
Statistics
Matches: 239, Mismatches: 33, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
126 42 0.18
127 8 0.03
128 21 0.09
129 69 0.29
130 81 0.34
132 15 0.06
133 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (128 bp):
CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTTGTATTATCAGAAAAGAAAAAG
AAAAAAGGCCTGCTTGGTCCCTACCTAAGAAAATACTCTTCCTGATTGATATTCAATCACCAG
Found at i:2121296 original size:30 final size:32
Alignment explanation
Indices: 2121262--2121332 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 32
2121252 ACATTTTGAT
2121262 TAATTTTT-AAA-AGTTTAATAAATATTT-TTA
1 TAATTTTTAAAATAGTTTAA-AAATATTTCTTA
*
2121292 TAATTTTTAAAATTATTTTAAAAATATTTCTTA
1 TAATTTTTAAAA-TAGTTTAAAAATATTTCTTA
2121325 TAATTTTT
1 TAATTTTT
2121333 TTAATTTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
30 8 0.22
31 3 0.08
32 8 0.22
33 17 0.47
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (32 bp):
TAATTTTTAAAATAGTTTAAAAATATTTCTTA
Found at i:2129465 original size:9 final size:9
Alignment explanation
Indices: 2129451--2129484 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
2129441 GATCAAGCAA
2129451 AATTAAATT
1 AATTAAATT
2129460 AATTAAATT
1 AATTAAATT
*
2129469 AATCAAATT
1 AATTAAATT
2129478 AATTAAA
1 AATTAAA
2129485 ATAAATATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (9 bp):
AATTAAATT
Found at i:2129982 original size:20 final size:19
Alignment explanation
Indices: 2129935--2129989 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
2129925 AATTTAATAC
**
2129935 TTATCTTAATATTATTGTA
1 TTATCTTAATATTAAAGTA
2129954 TTAAT-TTAATATTAAAGTGA
1 TT-ATCTTAATATTAAAGT-A
2129974 TTATCTTAATATTAAA
1 TTATCTTAATATTAAA
2129990 TTTAATCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (19 bp):
TTATCTTAATATTAAAGTA
Found at i:2130001 original size:68 final size:69
Alignment explanation
Indices: 2129911--2130045 Score: 200
Period size: 68 Copynumber: 2.0 Consensus size: 69
2129901 TGTAATAAAT
* * * * *
2129911 TTAATATTTAATTTAATTTAATACTTATCTTAAT-ATTATTGTATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATCTAATACTTATCTTAATAAGTATTATATTAATTTAATAATAAAGTGAT
2129975 TATC
66 TATC
* *
2129979 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATAATAAAGTGAT
1 TTAATATTAAATTTAATCTAATACTTATCTTAATAAGTATTATATTAATTTAATAATAAAGTGAT
2130044 TA
66 TA
2130046 AGTTTAATCA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
68 30 0.51
69 29 0.49
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (69 bp):
TTAATATTAAATTTAATCTAATACTTATCTTAATAAGTATTATATTAATTTAATAATAAAGTGAT
TATC
Found at i:2130206 original size:26 final size:26
Alignment explanation
Indices: 2130177--2130228 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
2130167 TTAGAAAATT
*
2130177 TATAAAGATATTTTTCATATTTACAA
1 TATAAAGATATTTTCCATATTTACAA
2130203 TATAAAGATATTTTCCATATTTACAA
1 TATAAAGATATTTTCCATATTTACAA
2130229 CTTGATCCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (26 bp):
TATAAAGATATTTTCCATATTTACAA
Found at i:2132795 original size:26 final size:27
Alignment explanation
Indices: 2132765--2132817 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
2132755 TTTTTATTTC
* *
2132765 ATTTTATTT-TAA-TAATAAGTTAAAAT
1 ATTTT-TTTCTAATTAAAAAGTAAAAAT
2132791 ATTTTTTTCTAATTAAAAAGTAAAAAT
1 ATTTTTTTCTAATTAAAAAGTAAAAAT
2132818 TAATTGTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 3 0.13
26 8 0.35
27 12 0.52
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (27 bp):
ATTTTTTTCTAATTAAAAAGTAAAAAT
Found at i:2133715 original size:32 final size:32
Alignment explanation
Indices: 2133679--2133748 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
2133669 ATTTTAGGGA
** *
2133679 GGTGAATGTTCTTATTTATGTGTGTATATTTT
1 GGTGAATGTTCTTATCGATGTGTGCATATTTT
*
2133711 GGTGATTGTTCTTATCGATGTGTGCATATTTT
1 GGTGAATGTTCTTATCGATGTGTGCATATTTT
2133743 GGTGAA
1 GGTGAA
2133749 ATATTAAGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.19, C:0.06, G:0.26, T:0.50
Consensus pattern (32 bp):
GGTGAATGTTCTTATCGATGTGTGCATATTTT
Found at i:2138818 original size:104 final size:104
Alignment explanation
Indices: 2138696--2138907 Score: 372
Period size: 104 Copynumber: 2.0 Consensus size: 104
2138686 AATGGATATC
2138696 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
2138761 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
2138800 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
2138865 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
2138904 GCAC
1 GCAC
2138908 ACAACAACCC
Statistics
Matches: 103, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
104 102 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:2139281 original size:29 final size:29
Alignment explanation
Indices: 2139248--2139311 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
2139238 TAATCCACCA
2139248 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
2139277 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
2139307 CCCAA
1 CCCAA
2139312 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:2139285 original size:30 final size:30
Alignment explanation
Indices: 2139255--2139311 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
2139245 CCACCCAACT
2139255 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
2139284 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
2139312 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:2140235 original size:17 final size:16
Alignment explanation
Indices: 2140213--2140246 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2140203 AAGTTAAAAT
2140213 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
2140230 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
2140246 A
1 A
2140247 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:2141974 original size:37 final size:39
Alignment explanation
Indices: 2141915--2142010 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
2141905 CGGATAGATT
* * * *
2141915 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
2141952 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
2141991 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
2142011 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:2147923 original size:17 final size:16
Alignment explanation
Indices: 2147901--2147934 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2147891 AAGTTAAAAT
2147901 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
2147918 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
2147934 A
1 A
2147935 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:2156886 original size:70 final size:72
Alignment explanation
Indices: 2156772--2156922 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
2156762 GGGGAATCAT
* *
2156772 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAATG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
2156836 GATATCG
66 GATATCG
***
2156843 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
2156907 GATATCG
66 GATATCG
2156914 CACTTAGCA
1 CACTTAGCA
2156923 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 28 0.38
71 46 0.62
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (72 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
GATATCG
Found at i:2156953 original size:103 final size:103
Alignment explanation
Indices: 2156842--2157063 Score: 374
Period size: 103 Copynumber: 2.2 Consensus size: 103
2156832 AATGGATATC
2156842 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
2156907 GAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
2156945 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
2157010 GATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
2157048 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
2157064 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
103 111 0.99
104 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:2156965 original size:26 final size:26
Alignment explanation
Indices: 2156935--2156985 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
2156925 ACCAATGAAC
*
2156935 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
2156961 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
2156986 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:2157425 original size:29 final size:29
Alignment explanation
Indices: 2157392--2157455 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
2157382 TAATCCACCA
2157392 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
2157421 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
2157451 CCCAA
1 CCCAA
2157456 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:2157429 original size:30 final size:30
Alignment explanation
Indices: 2157399--2157455 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
2157389 CCACCCAACT
2157399 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
2157428 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
2157456 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:2171437 original size:50 final size:50
Alignment explanation
Indices: 2171383--2171484 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
2171373 ATTATAGATG
*
2171383 TATGGAATTCATTTCATAATGTATGTCGTGTTTCATAGATATTATATTTT
1 TATGGAATTCATTTCATAATGTATGCCGTGTTTCATAGATATTATATTTT
2171433 TATGGAATTCATTTCATAATGTATGCCGTGTTTCATAGATATTATATTTT
1 TATGGAATTCATTTCATAATGTATGCCGTGTTTCATAGATATTATATTTT
2171483 TA
1 TA
2171485 AGTTATCTAC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (50 bp):
TATGGAATTCATTTCATAATGTATGCCGTGTTTCATAGATATTATATTTT
Found at i:2172367 original size:24 final size:25
Alignment explanation
Indices: 2172334--2172401 Score: 95
Period size: 24 Copynumber: 2.8 Consensus size: 25
2172324 AAGTCTGTCT
* *
2172334 GGAGAAGATTTAGAAGCTGAA-AAG
1 GGAGAGGATTTAGGAGCTGAATAAG
*
2172358 GGAGAGGATTTAGGAGCT-AATCAG
1 GGAGAGGATTTAGGAGCTGAATAAG
2172382 GGAGAGGATTTAGGAGCTGA
1 GGAGAGGATTTAGGAGCTGA
2172402 TTAGGGTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
23 2 0.05
24 36 0.92
25 1 0.03
ACGTcount: A:0.37, C:0.06, G:0.38, T:0.19
Consensus pattern (25 bp):
GGAGAGGATTTAGGAGCTGAATAAG
Found at i:2173902 original size:29 final size:27
Alignment explanation
Indices: 2173841--2173954 Score: 115
Period size: 27 Copynumber: 4.1 Consensus size: 27
2173831 AGGAAGCGTC
* *
2173841 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTTTGCCACAATTATCTGTT
2173868 CTGGTGGCTTTGCCACATATATATCTGTT
1 CTGGTGGCTTTGCCACA-AT-TATCTGTT
*
2173897 CTGGTGG-TTCTGCCACGATTATCTGTAT
1 CTGGTGGCTT-TGCCACAATTATCTGT-T
* * **
2173925 CTGGTGACTCTATCAC-ATTATCTGTT
1 CTGGTGGCTTTGCCACAATTATCTGTT
2173951 CTGG
1 CTGG
2173955 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
26 5 0.07
27 32 0.43
28 17 0.23
29 21 0.28
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTTTGCCACAATTATCTGTT
Found at i:2176808 original size:18 final size:18
Alignment explanation
Indices: 2176785--2176826 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
2176775 GTTAGGGACC
2176785 ATTGATGATAGTGACGCT
1 ATTGATGATAGTGACGCT
2176803 ATTGATGATAGTGACGCT
1 ATTGATGATAGTGACGCT
2176821 ATTGAT
1 ATTGAT
2176827 CGTGACCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (18 bp):
ATTGATGATAGTGACGCT
Found at i:2180849 original size:24 final size:24
Alignment explanation
Indices: 2180816--2180889 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 24
2180806 AAGTCTGTCT
* *
2180816 GGAGAAGATTCAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
2180840 GGAGAGGATTTAGGAACTGATCAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
2180864 GGAGAGAATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
2180888 GG
1 GG
2180890 TGAACTGTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.34, C:0.07, G:0.39, T:0.20
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:2181086 original size:11 final size:11
Alignment explanation
Indices: 2181070--2181099 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
2181060 CATCCATTTA
2181070 TTCTTTTCTTC
1 TTCTTTTCTTC
2181081 TTCTTTTCTTC
1 TTCTTTTCTTC
2181092 TTCTTTTC
1 TTCTTTTC
2181100 CCCATAGCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (11 bp):
TTCTTTTCTTC
Found at i:2182374 original size:27 final size:27
Alignment explanation
Indices: 2182334--2182447 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
2182324 AGGAAGCATC
*
2182334 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
2182361 CTGGTGGCTCTGCCACATATATATCTGTT
1 CTGGTGGCTCTGCCACA-AT-TATCTGAT
* *
2182390 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
2182418 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
2182444 CTGG
1 CTGG
2182448 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.07
27 30 0.40
28 18 0.24
29 22 0.29
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:2186676 original size:18 final size:19
Alignment explanation
Indices: 2186653--2186694 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
2186643 ATGTGACCCC
2186653 TGTTTTCCC-AAATTTTCA
1 TGTTTTCCCAAAATTTTCA
2186671 TGTTTTCCCAAAATTTTCA
1 TGTTTTCCCAAAATTTTCA
2186690 TGTTT
1 TGTTT
2186695 GTTTCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.21, C:0.19, G:0.07, T:0.52
Consensus pattern (19 bp):
TGTTTTCCCAAAATTTTCA
Found at i:2187257 original size:38 final size:38
Alignment explanation
Indices: 2187133--2187243 Score: 159
Period size: 38 Copynumber: 2.9 Consensus size: 38
2187123 ACAAAATTTG
* * * *
2187133 CATGTTTACTGTTAATAATAAATTTAGTACGTGTTAAA
1 CATGTCTACTGTTAATAATGAATTGAGTACATGTTAAA
* *
2187171 CATGTCTACTGTTAATGATGAATTGAGTAGATGTTAAA
1 CATGTCTACTGTTAATAATGAATTGAGTACATGTTAAA
*
2187209 CATGTCTACTGTTAATAATGAATTGAGCACATGTT
1 CATGTCTACTGTTAATAATGAATTGAGTACATGTT
2187244 GTACCTGTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (38 bp):
CATGTCTACTGTTAATAATGAATTGAGTACATGTTAAA
Found at i:2187412 original size:29 final size:29
Alignment explanation
Indices: 2187347--2187413 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
2187337 CAGTTTATCT
* *
2187347 ACAAATTTGCTATGCATCCAAAACTAGAG
1 ACAAATTTTCTATGCATCCAAAACTAAAG
* * * * *
2187376 GCATATTTTCTATGTATCCACAGCTAAAG
1 ACAAATTTTCTATGCATCCAAAACTAAAG
2187405 ACAAATTTT
1 ACAAATTTT
2187414 AACTACCGGA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.31
Consensus pattern (29 bp):
ACAAATTTTCTATGCATCCAAAACTAAAG
Found at i:2188721 original size:38 final size:38
Alignment explanation
Indices: 2188604--2188728 Score: 153
Period size: 38 Copynumber: 3.3 Consensus size: 38
2188594 ACATAATTTG
* *
2188604 CATGTCTACTGTTAATAATAAATTAAGTACTTGTTAAA
1 CATGTCTACTGTTAATAATGAATTAAGTACATGTTAAA
* * * *
2188642 CATGTCTACTATTAATGATGAATTAAGTATATATTAAA
1 CATGTCTACTGTTAATAATGAATTAAGTACATGTTAAA
* **
2188680 CATGTCTACTGTTAATAATGAATTGAA-CACATGTTGTA
1 CATGTCTACTGTTAATAATGAATT-AAGTACATGTTAAA
2188718 CATGTCTACTG
1 CATGTCTACTG
2188729 CTACTGTTGA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
38 71 0.97
39 2 0.03
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (38 bp):
CATGTCTACTGTTAATAATGAATTAAGTACATGTTAAA
Found at i:2189017 original size:44 final size:44
Alignment explanation
Indices: 2188864--2189021 Score: 131
Period size: 45 Copynumber: 3.5 Consensus size: 44
2188854 TTATTTACGA
* * * * * *
2188864 GATTTT-TCTGTGTATCCACAGCCAAAGGTAGATTCTAATTTTGG
1 GATTTTGT-TGTGCATCCATAGCCAGAGGCAGATTCTAACTGTGG
* ** * * * * *
2188908 GATAATTGTTGTGTTTTCC-TAGCCAGAGGCTGATTTTATCTGCGA
1 GAT-TTTGTTGTG-CATCCATAGCCAGAGGCAGATTCTAACTGTGG
2188953 GATTTTTGTTGTGCATCCATAGCCAGAGGCAGATTCTAACTGTGG
1 GA-TTTTGTTGTGCATCCATAGCCAGAGGCAGATTCTAACTGTGG
*
2188998 GATTTTGTTGTGCGTCCATAGCCA
1 GATTTTGTTGTGCATCCATAGCCA
2189022 CTGACAGTTT
Statistics
Matches: 88, Mismatches: 21, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
44 27 0.31
45 55 0.62
46 6 0.07
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (44 bp):
GATTTTGTTGTGCATCCATAGCCAGAGGCAGATTCTAACTGTGG
Found at i:2189020 original size:89 final size:89
Alignment explanation
Indices: 2188851--2189021 Score: 202
Period size: 90 Copynumber: 1.9 Consensus size: 89
2188841 CTAGAAGCAA
* * * * *
2188851 ATTTTATTTACGAGATTTTTCTGTGTATCCACAGCCAAAGGTAGATTCTAATTTTGGGATAATTG
1 ATTTTATCTACGAGATTTTTCTGTGCATCCACAGCCAAAGGCAGATTCTAACTGTGGGATAATTG
**
2188916 TTGTGTTTTCCTAGCCAGAGGCTG
66 TTGTGTCGTCCTAGCCAGAGGCTG
* * * * *
2188940 ATTTTATCTGCGAGATTTTTGTTGTGCATCCATAGCCAGAGGCAGATTCTAACTGTGGGAT-TTT
1 ATTTTATCTACGAGATTTTT-CTGTGCATCCACAGCCAAAGGCAGATTCTAACTGTGGGATAATT
2189004 GTTGTG-CGTCCATAGCCA
65 GTTGTGTCGTCC-TAGCCA
2189022 CTGACAGTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
88 3 0.04
89 32 0.47
90 33 0.49
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (89 bp):
ATTTTATCTACGAGATTTTTCTGTGCATCCACAGCCAAAGGCAGATTCTAACTGTGGGATAATTG
TTGTGTCGTCCTAGCCAGAGGCTG
Found at i:2208221 original size:27 final size:27
Alignment explanation
Indices: 2208182--2208235 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
2208172 AAAAAGACTA
2208182 AGTGATGCAGTAATGGGAATGAACATG
1 AGTGATGCAGTAATGGGAATGAACATG
**
2208209 AGTGATGTGGTAATGGGAATGAACATG
1 AGTGATGCAGTAATGGGAATGAACATG
2208236 TCTAGGATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.06, G:0.35, T:0.24
Consensus pattern (27 bp):
AGTGATGCAGTAATGGGAATGAACATG
Found at i:2209191 original size:117 final size:117
Alignment explanation
Indices: 2208985--2209223 Score: 424
Period size: 117 Copynumber: 2.0 Consensus size: 117
2208975 CAAAAAGGAA
* * *
2208985 AAATGTATGAGCTTAAGTTCAAAATAAGTTTGGGGGTGTTCTAAAGGTTCGCTTAAAGAAAAAGG
1 AAATGCATGAGCTTAAGTTCAAAATAAGTTTGGGGGTGTTCCAAAGGTTCACTTAAAGAAAAAGG
*
2209050 TTGTATTACGAGAAAACCAAGACAAAGTTAAAGGTTAAGATTTTTAAAACTG
66 TTGTATTACGAGAAAACCAAGACAAAGTTAAAGGTTAAGATTTTTAAAACCG
*
2209102 AAATGCATGAGCTTAAGTTCAAAATATGTTTGGGGGTGTTCCAAAGGTTCACTTAAAGAAAAAGG
1 AAATGCATGAGCTTAAGTTCAAAATAAGTTTGGGGGTGTTCCAAAGGTTCACTTAAAGAAAAAGG
*
2209167 TTGTATTACGAGGAAACCAAGACAAAGTTAAAGGTTAAGATTTTTAAAACCG
66 TTGTATTACGAGAAAACCAAGACAAAGTTAAAGGTTAAGATTTTTAAAACCG
2209219 AAATG
1 AAATG
2209224 TCCCATCTCT
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 116 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (117 bp):
AAATGCATGAGCTTAAGTTCAAAATAAGTTTGGGGGTGTTCCAAAGGTTCACTTAAAGAAAAAGG
TTGTATTACGAGAAAACCAAGACAAAGTTAAAGGTTAAGATTTTTAAAACCG
Found at i:2210467 original size:19 final size:19
Alignment explanation
Indices: 2210440--2210481 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
2210430 CATCTCTAAA
*
2210440 TTCTCTTAGCATTCTTCTT
1 TTCTATTAGCATTCTTCTT
2210459 TTCTATTAGCATTCTTCTT
1 TTCTATTAGCATTCTTCTT
2210478 TTCT
1 TTCT
2210482 CCCCACGCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.12, C:0.24, G:0.05, T:0.60
Consensus pattern (19 bp):
TTCTATTAGCATTCTTCTT
Found at i:2211275 original size:19 final size:22
Alignment explanation
Indices: 2211242--2211281 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
2211232 AGTTTATTTA
2211242 TGTTATAATTGTTGC-AAAATG
1 TGTTATAATTGTTGCTAAAATG
2211263 TGTT-TAATT-TTGCTAAAAT
1 TGTTATAATTGTTGCTAAAAT
2211282 CTATTTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (22 bp):
TGTTATAATTGTTGCTAAAATG
Found at i:2212295 original size:25 final size:25
Alignment explanation
Indices: 2212195--2212288 Score: 68
Period size: 24 Copynumber: 3.8 Consensus size: 25
2212185 GGTTGTATAA
**
2212195 CAGGAAGCTCATAAGAGCCA-TAAT
1 CAGGAAGCTCCGAAGAGCCATTAAT
* * * *
2212219 CAGAAAGCTCATGTA-AGCCAATAA-
1 CAGGAAGCTC-CGAAGAGCCATTAAT
* *
2212243 CGGGTAGCTCCGAAGAGCCATTAAT
1 CAGGAAGCTCCGAAGAGCCATTAAT
* *
2212268 CAGGAAGCTCCGGATAGCCAT
1 CAGGAAGCTCCGAAGAGCCAT
2212289 ATATCAGAAG
Statistics
Matches: 52, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
23 2 0.04
24 29 0.56
25 21 0.40
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (25 bp):
CAGGAAGCTCCGAAGAGCCATTAAT
Found at i:2221582 original size:17 final size:16
Alignment explanation
Indices: 2221546--2221591 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 16
2221536 TTTAGTATAG
2221546 ATATTTATAAAAACAT
1 ATATTTATAAAAACAT
2221562 ATATTTATGAAACAA-AT
1 ATATTTAT-AAA-AACAT
2221579 ATATTTATAAAAA
1 ATATTTATAAAAA
2221592 AAGTAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 2 0.07
16 11 0.39
17 13 0.46
18 2 0.07
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (16 bp):
ATATTTATAAAAACAT
Found at i:2225533 original size:14 final size:17
Alignment explanation
Indices: 2225502--2225538 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
2225492 ATTATAAAGG
2225502 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
2225519 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
2225533 ATATTA
1 ATATTA
2225539 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:2225714 original size:14 final size:14
Alignment explanation
Indices: 2225688--2225738 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
2225678 GAAAACAAAA
2225688 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
2225702 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
2225716 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
2225731 G-AATAAAA
1 GAAATAAAA
2225739 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:2225749 original size:17 final size:16
Alignment explanation
Indices: 2225727--2225760 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2225717 AAGTTAAAAT
2225727 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
2225744 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
2225760 A
1 A
2225761 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:2226480 original size:3 final size:3
Alignment explanation
Indices: 2226459--2226508 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
2226449 GTAAGTATAA
* * * *
2226459 TAT TAG TAT TAA T-T TAT TAT TAG TAT TAT TTT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2226506 TAT
1 TAT
2226509 GAGTGGGAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 1 0.03
3 37 0.97
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2226678 original size:23 final size:23
Alignment explanation
Indices: 2226649--2226715 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
2226639 TGTGTGAATT
*
2226649 TGTGAAATAATTATTGATTGAAGG
1 TGTGAAA-AATTATTGATTGAAAG
*
2226673 TG-GAAAAATGATTGAATTGAAAG
1 TGTGAAAAATTATTG-ATTGAAAG
*
2226696 TGTGAGAAATT-TTGATTGAA
1 TGTGAAAAATTATTGATTGAA
2226716 TTGAGAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
22 13 0.35
23 16 0.43
24 8 0.22
ACGTcount: A:0.40, C:0.00, G:0.25, T:0.34
Consensus pattern (23 bp):
TGTGAAAAATTATTGATTGAAAG
Found at i:2226922 original size:37 final size:39
Alignment explanation
Indices: 2226863--2226958 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
2226853 CGGATAGATT
* * * *
2226863 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
2226900 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
2226939 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
2226959 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:2232635 original size:16 final size:17
Alignment explanation
Indices: 2232603--2232635 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2232593 ATTTTATAAG
2232603 TTTAATACAAAGGTTAA
1 TTTAATACAAAGGTTAA
*
2232620 TTTAATA-AATGGTTAA
1 TTTAATACAAAGGTTAA
2232636 ATGTAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.39
Consensus pattern (17 bp):
TTTAATACAAAGGTTAA
Found at i:2233998 original size:35 final size:34
Alignment explanation
Indices: 2233893--2234005 Score: 111
Period size: 35 Copynumber: 3.2 Consensus size: 34
2233883 TCTGGCGTGC
* * * *
2233893 TGGATGGTACTGGCTCTAATGAACAATTGGTGTGC
1 TGGATGGTACTGACTCTTATGAGC-ATTGGTGTGT
* *
2233928 TGGATGGTACTGACT-TTCACGAGCAGTTGGCGTGT
1 TGGATGGTACTGACTCTT-ATGAGCA-TTGGTGTGT
* *
2233963 TGGATGGTACTGCCTCTTATGAGCATCTAGTGTGT
1 TGGATGGTACTGACTCTTATGAGCAT-TGGTGTGT
2233998 TGGATGGT
1 TGGATGGT
2234006 TGATAGTGTA
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
34 3 0.05
35 59 0.92
36 2 0.03
ACGTcount: A:0.19, C:0.15, G:0.33, T:0.34
Consensus pattern (34 bp):
TGGATGGTACTGACTCTTATGAGCATTGGTGTGT
Found at i:2236667 original size:17 final size:18
Alignment explanation
Indices: 2236654--2236778 Score: 84
Period size: 18 Copynumber: 6.9 Consensus size: 18
2236644 TAATCTTCAA
2236654 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
*
2236673 TGATATGCAATCTCAGA-
1 TGATATGCAATCTTAGAG
*
2236690 T-ATGATACAATCTTAGA-
1 TGAT-ATGCAATCTTAGAG
2236707 T-ATAATTGCAATCTTAGA-
1 TGAT-A-TGCAATCTTAGAG
* *
2236725 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
*
2236744 TGAT-TGCAATCTTAGATA
1 TGATATGCAATCTTAGA-G
*
2236762 TGATATACAATCTTAGA
1 TGATATGCAATCTTAGA
2236779 AGATATGATT
Statistics
Matches: 91, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
16 2 0.02
17 27 0.30
18 32 0.35
19 28 0.31
20 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:2236678 original size:19 final size:19
Alignment explanation
Indices: 2236653--2236778 Score: 174
Period size: 19 Copynumber: 6.9 Consensus size: 19
2236643 ATAATCTTCA
2236653 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
2236672 GTGATATGCAATCTCAGAT
1 ATGATATGCAATCTTAGAT
2236691 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
2236708 ATAAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
2236726 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
2236743 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
2236761 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
2236779 AGATATGATT
Statistics
Matches: 94, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
17 30 0.32
18 31 0.33
19 33 0.35
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:2236718 original size:54 final size:54
Alignment explanation
Indices: 2236656--2236778 Score: 169
Period size: 54 Copynumber: 2.3 Consensus size: 54
2236646 ATCTTCAATG
*
2236656 ATATGCAATCTTAGATGTGATATGCAATCTCAGATATGA-TACAATCTTAGATATA
1 ATATGCAATCTTAGATATGATA--CAATCTCAGATATGATTACAATCTTAGATATA
* * *
2236711 AT-TGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATG
1 ATATGCAATCTTAGATATGATACAATCTCAGATATGATTACAATCTTAGATATA
*
2236764 ATATACAATCTTAGA
1 ATATGCAATCTTAGA
2236779 AGATATGATT
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
52 14 0.23
53 16 0.26
54 29 0.48
55 2 0.03
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (54 bp):
ATATGCAATCTTAGATATGATACAATCTCAGATATGATTACAATCTTAGATATA
Found at i:2236726 original size:35 final size:35
Alignment explanation
Indices: 2236661--2236778 Score: 182
Period size: 35 Copynumber: 3.3 Consensus size: 35
2236651 CAATGATATG
* *
2236661 CAATCTTAGATGTGATATGCAATCTCAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
*
2236697 CAATCTTAGATATAATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
2236732 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
2236769 CAATCTTAGA
1 CAATCTTAGA
2236779 AGATATGATT
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
35 49 0.64
36 14 0.18
37 13 0.17
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:2239064 original size:25 final size:25
Alignment explanation
Indices: 2239030--2239080 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
2239020 CTACTTGTTT
2239030 GCCAATCTTTCTTTCAAGGTAATCA
1 GCCAATCTTTCTTTCAAGGTAATCA
2239055 GCCAATCTTTCTTTCAAGGTAATCA
1 GCCAATCTTTCTTTCAAGGTAATCA
2239080 G
1 G
2239081 AGCAACTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (25 bp):
GCCAATCTTTCTTTCAAGGTAATCA
Found at i:2242018 original size:8 final size:7
Alignment explanation
Indices: 2242000--2242058 Score: 54
Period size: 7 Copynumber: 8.7 Consensus size: 7
2241990 CTATTTCAAA
2242000 AAAAAAG
1 AAAAAAG
*
2242007 AAAAGAG
1 AAAAAAG
2242014 AAAAAA-
1 AAAAAAG
2242020 AAGAAAAG
1 AA-AAAAG
2242028 -AAAAAG
1 AAAAAAG
2242034 AGAAAAA-
1 A-AAAAAG
*
2242041 AAAGAA-
1 AAAAAAG
2242047 AAAAAAG
1 AAAAAAG
2242054 AAAAA
1 AAAAA
2242059 TGGAGAGGCC
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
6 16 0.37
7 22 0.51
8 5 0.12
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:2242019 original size:9 final size:9
Alignment explanation
Indices: 2241998--2242058 Score: 70
Period size: 9 Copynumber: 6.6 Consensus size: 9
2241988 TTCTATTTCA
2241998 AAAAAAAAG
1 AAAAAAAAG
*
2242007 AAAAGAGAAAA
1 AAAA-A-AAAG
2242018 AAAAGAAAAG
1 AAAA-AAAAG
*
2242028 -AAAAAGAG
1 AAAAAAAAG
2242036 AAAAAAAAG
1 AAAAAAAAG
2242045 AAAAAAAAG
1 AAAAAAAAG
2242054 AAAAA
1 AAAAA
2242059 TGGAGAGGCC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
8 4 0.09
9 28 0.62
10 4 0.09
11 9 0.20
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:2242023 original size:11 final size:10
Alignment explanation
Indices: 2241997--2242058 Score: 74
Period size: 11 Copynumber: 6.1 Consensus size: 10
2241987 CTTCTATTTC
2241997 AAAAA-AAAA
1 AAAAAGAAAA
*
2242006 GAAAAGAGAAA
1 AAAAAGA-AAA
2242017 AAAAAGAAAA
1 AAAAAGAAAA
2242027 GAAAAAGAGAAA
1 -AAAAAGA-AAA
2242039 AAAAAG-AAA
1 AAAAAGAAAA
2242048 AAAAAGAAAA
1 AAAAAGAAAA
2242058 A
1 A
2242059 TGGAGAGGCC
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
9 13 0.28
10 8 0.17
11 22 0.48
12 3 0.07
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:2242032 original size:22 final size:22
Alignment explanation
Indices: 2241997--2242052 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
2241987 CTTCTATTTC
2241997 AAAAA-AAAAG-AAAAGAGAAA
1 AAAAAGAAAAGAAAAAGAGAAA
2242017 AAAAAGAAAAGAAAAAGAGAAA
1 AAAAAGAAAAGAAAAAGAGAAA
2242039 AAAAAGAAAA-AAAA
1 AAAAAGAAAAGAAAA
2242053 GAAAAATGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
20 5 0.15
21 9 0.26
22 20 0.59
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAGAAAAAGAGAAA
Found at i:2243157 original size:79 final size:81
Alignment explanation
Indices: 2243048--2243202 Score: 251
Period size: 79 Copynumber: 1.9 Consensus size: 81
2243038 TTAAATTTGC
**
2243048 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-A-GACTCGCCTAAATCCCCTAAGCAGT
1 AGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATCGAGACGACTCGCCTAAATCCCCTAAGCAGT
2243111 AGGGTAACAGGTTCGT
66 AGGGTAACAGGTTCGT
* *
2243127 AGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATCGATGACTACTCGCCTTAATCCCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATCGA-GACGACTCGCCTAAATCCCCTAAGCAG
2243192 TAGGGTAACAG
65 TAGGGTAACAG
2243203 ATCTTATCCC
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
79 35 0.51
81 1 0.01
82 33 0.48
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (81 bp):
AGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATCGAGACGACTCGCCTAAATCCCCTAAGCAGT
AGGGTAACAGGTTCGT
Found at i:2243250 original size:72 final size:72
Alignment explanation
Indices: 2243127--2243270 Score: 195
Period size: 72 Copynumber: 2.0 Consensus size: 72
2243117 ACAGGTTCGT
* * * *
2243127 AGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATCGATGACTACTCGCCTTAATCCCCTAAGCAG
1 AGATCTTA-CTCCCTAAGAAGTACCAGAGCAGATCGAAGACTACTCACCTTAA-CCCCTAAGCAG
2243192 TAGGGTAAC
64 TAGGGTAAC
2243201 AGATCTTA-TCCCTAAGAAGTACCAGAGCAGATCGAAGA-TGA-TGCACCTTAACCCCTAAGCAG
1 AGATCTTACTCCCTAAGAAGTACCAGAGCAGATCGAAGACT-ACT-CACCTTAACCCCTAAGCAG
2243263 TAGGGTAA
64 TAGGGTAA
2243271 TAGACCAAAG
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
71 21 0.33
72 35 0.55
74 8 0.12
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.22
Consensus pattern (72 bp):
AGATCTTACTCCCTAAGAAGTACCAGAGCAGATCGAAGACTACTCACCTTAACCCCTAAGCAGTA
GGGTAAC
Found at i:2243635 original size:206 final size:206
Alignment explanation
Indices: 2243281--2244067 Score: 1324
Period size: 206 Copynumber: 3.8 Consensus size: 206
2243271 TAGACCAAAG
* * * * *
2243281 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTG
1 CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
* * * * *
2243346 CTTATAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCACGTGTTTACGATGAAGCAAATCT
66 CTTACAAGGAGAAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
* * * *
2243411 AAAATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAATTTTAGCGTCTCCATATTCGACG
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGCCTCCATATTCGACG
2243476 GAGGGCAGACA
196 GAGGGCAGACA
2243487 CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
1 CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
* * *
2243552 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCGCATGCTTACGCTGAAGCAAGTCT
66 CTTACAAGGAGAAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
* *
2243617 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCACCTCCATATTCGACA
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGCCTCCATATTCGACG
2243682 GAGGGCAGACA
196 GAGGGCAGACA
* *
2243693 CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGTAGATCTAAGATGGTTTGGTATCCTTGTG
1 CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
* *
2243758 CTTACAAGGAGAAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCCGAAGCAAGTCT
66 CTTACAAGGAGAAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
*
2243823 AAGATAATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGCCTCCATATTCGACG
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGCCTCCATATTCGACG
2243888 GAGGGCAGACA
196 GAGGGCAGACA
* *
2243899 CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGATATCCTTGTA
1 CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
2243964 CTTACAAGGAGAAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
66 CTTACAAGGAGAAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
2244029 AAGATGATTTGGCATCTCTGTATTGTCA-AGGAACAAATC
131 AAGATGATTTGGCATCTCTGTATTGTCAGA-GAACAAATC
2244068 GAAGAAGCAG
Statistics
Matches: 548, Mismatches: 32, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
205 1 0.00
206 547 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (206 bp):
CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
CTTACAAGGAGAAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGCCTCCATATTCGACG
GAGGGCAGACA
Found at i:2244514 original size:17 final size:17
Alignment explanation
Indices: 2244473--2244590 Score: 155
Period size: 17 Copynumber: 6.6 Consensus size: 17
2244463 CAATGATATG
*
2244473 CAATCTTAGATGTGATA
1 CAATCTTAGATATGATA
*
2244490 TGCAATCTTAGATATGACA
1 --CAATCTTAGATATGATA
2244509 CAATCTTAGATATGATTA
1 CAATCTTAGATATGA-TA
2244527 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
2244544 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
2244562 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
2244581 CAATCTTAGA
1 CAATCTTAGA
2244591 AGATATGATT
Statistics
Matches: 90, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
17 32 0.36
18 31 0.34
19 26 0.29
20 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:2244531 original size:18 final size:18
Alignment explanation
Indices: 2244473--2244590 Score: 168
Period size: 18 Copynumber: 6.6 Consensus size: 18
2244463 CAATGATATG
* *
2244473 CAATCTTAGATGTGATATG
1 CAATCTTAGATATGAT-TA
*
2244492 CAATCTTAGATATGA-CA
1 CAATCTTAGATATGATTA
2244509 CAATCTTAGATATGATTA
1 CAATCTTAGATATGATTA
2244527 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
2244544 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
2244562 CAATCTTAGATATGATATA
1 CAATCTTAGATATGAT-TA
2244581 CAATCTTAGA
1 CAATCTTAGA
2244591 AGATATGATT
Statistics
Matches: 90, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
17 32 0.36
18 33 0.37
19 25 0.28
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.36
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:2244537 original size:35 final size:35
Alignment explanation
Indices: 2244473--2244590 Score: 182
Period size: 35 Copynumber: 3.3 Consensus size: 35
2244463 CAATGATATG
* *
2244473 CAATCTTAGATGTGATATGCAATCTTAGATATGACA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
*
2244509 CAATCTTAGATATGATTACAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
2244544 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
2244581 CAATCTTAGA
1 CAATCTTAGA
2244591 AGATATGATT
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
35 48 0.63
36 15 0.20
37 13 0.17
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:2259070 original size:29 final size:29
Alignment explanation
Indices: 2259024--2259125 Score: 71
Period size: 29 Copynumber: 3.4 Consensus size: 29
2259014 ATTTGAGCAC
* *
2259024 TTTTGAAAAGGCTAGGCCCTTCTCTGACCA
1 TTTTG-AAAGGTTAGGCCCTTCTATGACCA
* * *
2259054 TTTTGAAAGGTTTGG-CCTTCATTTGAGCA
1 TTTTGAAAGGTTAGGCCCTTC-TATGACCA
* * * *
2259083 CTTTTATAAAAGTTAGGCTCTTATATGACCA
1 -TTTT-GAAAGGTTAGGCCCTTCTATGACCA
*
2259114 TCTTGAAAGGTT
1 TTTTGAAAGGTT
2259126 TGGTTCTTAT
Statistics
Matches: 54, Mismatches: 14, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
28 5 0.09
29 20 0.37
30 12 0.22
31 14 0.26
32 3 0.06
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (29 bp):
TTTTGAAAGGTTAGGCCCTTCTATGACCA
Found at i:2259112 original size:60 final size:59
Alignment explanation
Indices: 2259010--2259128 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 59
2259000 TTTGAGAAGC
* * * *
2259010 CCTTATTTGAGCACTTTTGAAAAGGCTAGGCCCTTCTCTGACCATTTTGAAAGGTTTGG
1 CCTTATTTGAGCACTTTTGAAAAAGCTAGGCCCTTATATGACCATCTTGAAAGGTTTGG
* *
2259069 CCTTCATTTGAGCACTTTT-ATAAAAGTTAGGCTCTTATATGACCATCTTGAAAGGTTTGG
1 CCTT-ATTTGAGCACTTTTGA-AAAAGCTAGGCCCTTATATGACCATCTTGAAAGGTTTGG
2259129 TTCTTATATG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
59 5 0.10
60 47 0.90
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (59 bp):
CCTTATTTGAGCACTTTTGAAAAAGCTAGGCCCTTATATGACCATCTTGAAAGGTTTGG
Found at i:2259562 original size:6 final size:6
Alignment explanation
Indices: 2259551--2259585 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
2259541 CGGAGAAATT
2259551 ATTATG ATTATG ATTATG ATTATG ATTATG ATTAT
1 ATTATG ATTATG ATTATG ATTATG ATTATG ATTAT
2259586 TTTTGATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (6 bp):
ATTATG
Found at i:2264515 original size:9 final size:9
Alignment explanation
Indices: 2264501--2264534 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
2264491 GTTTTCGAAT
*
2264501 TCGAATAAC
1 TCGAATAAA
*
2264510 TCGAATAAT
1 TCGAATAAA
2264519 TCGAATAAA
1 TCGAATAAA
2264528 TCGAATA
1 TCGAATA
2264535 TCAAACTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAA
Found at i:2264519 original size:18 final size:18
Alignment explanation
Indices: 2264498--2264534 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
2264488 TGAGTTTTCG
*
2264498 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCGAAT
2264516 AATTCGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
2264534 A
1 A
2264535 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:2264982 original size:19 final size:18
Alignment explanation
Indices: 2264924--2264988 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
2264914 CTCCCTCTTA
2264924 TTTACTT-TCCCTCAAACT
1 TTTACTTCTCCCT-AAACT
*
2264942 TTTACTTCT-CCAAAACTT
1 TTTACTTCTCCCTAAAC-T
*
2264960 TTTATTTTCTCCCTAAACT
1 TTTA-CTTCTCCCTAAACT
2264979 TTTACTTCTC
1 TTTACTTCTC
2264989 ACCCTTTACT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 4 0.10
18 19 0.49
19 10 0.26
20 6 0.15
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTACTTCTCCCTAAACT
Found at i:2266061 original size:57 final size:57
Alignment explanation
Indices: 2265953--2266115 Score: 207
Period size: 57 Copynumber: 2.9 Consensus size: 57
2265943 GTCATTTTCT
* * *
2265953 TTTTCTTTTTGGAGAAAACCACATTCATTTCCAAATGA-TTC-TATT-T-C---TCCA
1 TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCAT-TTCTCCATTTCCA
*
2266004 TTTTCATTTTGGAGAAAACTATAATCATTTCCAAATGATTTCATTTCTCCATTTCCA
1 TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCATTTCTCCATTTCCA
2266061 TTTTCATTTTGGAGAAAACCATAATCATTTCCAAAT-ATTTCCCATTTCTCCATTT
1 TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTT--CATTTCTCCATTT
2266116 TCACCATTTC
Statistics
Matches: 98, Mismatches: 5, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
51 34 0.35
52 5 0.05
53 2 0.02
54 1 0.01
56 4 0.04
57 39 0.40
58 13 0.13
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.44
Consensus pattern (57 bp):
TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCATTTCTCCATTTCCA
Found at i:2272172 original size:17 final size:15
Alignment explanation
Indices: 2272148--2272184 Score: 56
Period size: 17 Copynumber: 2.3 Consensus size: 15
2272138 AATAAAGAAT
2272148 TAATTTTTTTAAAAA
1 TAATTTTTTTAAAAA
2272163 GTAATATTTTTTAAAAA
1 -TAAT-TTTTTTAAAAA
2272180 TAATT
1 TAATT
2272185 ATAATTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.05
16 8 0.40
17 11 0.55
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
TAATTTTTTTAAAAA
Found at i:2277648 original size:73 final size:72
Alignment explanation
Indices: 2277570--2277750 Score: 175
Period size: 73 Copynumber: 2.5 Consensus size: 72
2277560 CTGTATAGCG
* * * * * *
2277570 GGAAGCTCATAAGAGCCATAATCAGGAAGCTCATGCGAGCCAATAACAAGTAGCTCCAAAGAGCC
1 GGAAGCTCAAAAGAGCCATAATCGGGAAGCTCAAGCGAGCC-ATAACAAGAAGCCCCAAAGAACC
2277635 ATTAATC-
65 ATTAATCA
*** * * * * * *
2277642 GAGAAGCTCCGGATAGCCATATATCGGGAAGTTCAAGTGAGCCATATCGAGAAGCCCCGAAGAAC
1 G-GAAGCTCAAAAGAGCCATA-ATCGGGAAGCTCAAGCGAGCCATAACAAGAAGCCCCAAAGAAC
2277707 CATTAATCA
64 CATTAATCA
2277716 GGAAGCTCACAAAGAGCCATTAATCGGGAAGCTCA
1 GGAAGCTCA-AAAGAGCCA-TAATCGGGAAGCTCA
2277751 CGAAGAGCCA
Statistics
Matches: 85, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
72 1 0.01
73 46 0.54
74 36 0.42
75 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (72 bp):
GGAAGCTCAAAAGAGCCATAATCGGGAAGCTCAAGCGAGCCATAACAAGAAGCCCCAAAGAACCA
TTAATCA
Found at i:2277651 original size:25 final size:25
Alignment explanation
Indices: 2277621--2277761 Score: 103
Period size: 25 Copynumber: 5.6 Consensus size: 25
2277611 AATAACAAGT
2277621 AGCTCCAAAGAGCCATTAATCGAGA
1 AGCTCCAAAGAGCCATTAATCGAGA
** * *
2277646 AGCTCCGGATAGCCA-TATATCGGGA
1 AGCTCCAAAGAGCCATTA-ATCGAGA
* *
2277671 AG-TTCAAGTGAGCCA-T-ATCGAGA
1 AGCTCCAA-AGAGCCATTAATCGAGA
* * *
2277694 AGCCCCGAAGAACCATTAATC-AGGA
1 AGCTCCAAAGAGCCATTAATCGA-GA
*
2277719 AGCTCACAAAGAGCCATTAATCGGGA
1 AGCTC-CAAAGAGCCATTAATCGAGA
*
2277745 AGCTCACGAAGAGCCAT
1 AGCTC-CAAAGAGCCAT
2277762 ATAACGGGAC
Statistics
Matches: 88, Mismatches: 20, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
23 13 0.15
24 8 0.09
25 35 0.40
26 32 0.36
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.16
Consensus pattern (25 bp):
AGCTCCAAAGAGCCATTAATCGAGA
Found at i:2277776 original size:26 final size:26
Alignment explanation
Indices: 2277621--2277770 Score: 109
Period size: 26 Copynumber: 6.0 Consensus size: 26
2277611 AATAACAAGT
*
2277621 AGCTC-CAAAGAGCCATTAATCGAGA
1 AGCTCACAAAGAGCCATTAATCGGGA
** *
2277646 AGCTC-CGGATAGCCA-TATATCGGGA
1 AGCTCACAAAGAGCCATTA-ATCGGGA
* ** *
2277671 AGTTCA-AGTGAGCCA-T-ATCGAGA
1 AGCTCACAAAGAGCCATTAATCGGGA
* * * *
2277694 AGC-CCCGAAGAACCATTAATCAGGA
1 AGCTCACAAAGAGCCATTAATCGGGA
2277719 AGCTCACAAAGAGCCATTAATCGGGA
1 AGCTCACAAAGAGCCATTAATCGGGA
*
2277745 AGCTCACGAAGAGCCATATAA-CGGGA
1 AGCTCACAAAGAGCCAT-TAATCGGGA
2277771 CACTCATAAG
Statistics
Matches: 96, Mismatches: 22, Indels: 13
0.73 0.17 0.10
Matches are distributed among these distances:
22 1 0.01
23 13 0.14
24 3 0.03
25 37 0.39
26 39 0.41
27 3 0.03
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
AGCTCACAAAGAGCCATTAATCGGGA
Found at i:2282216 original size:10 final size:10
Alignment explanation
Indices: 2282195--2282232 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
2282185 AAATTAAATC
2282195 TTTTAA-TTA
1 TTTTAATTTA
2282204 TTTTAATTTA
1 TTTTAATTTA
*
2282214 TTTTATTTTA
1 TTTTAATTTA
*
2282224 TTTTTATTT
1 TTTTAATTT
2282233 CAAAAAATCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
9 6 0.24
10 19 0.76
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTAATTTA
Found at i:2283665 original size:22 final size:23
Alignment explanation
Indices: 2283638--2283691 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
2283628 AGCTTACCGA
* *
2283638 TTTCAGCTCGTATGAACTTACTG
1 TTTCAGCTCGAAAGAACTTACTG
*
2283661 -TTCAGCTCGAAAGAGCTTACTG
1 TTTCAGCTCGAAAGAACTTACTG
2283683 TTTCAGCTC
1 TTTCAGCTC
2283692 AATAGAGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (23 bp):
TTTCAGCTCGAAAGAACTTACTG
Found at i:2283691 original size:23 final size:22
Alignment explanation
Indices: 2283620--2283730 Score: 91
Period size: 23 Copynumber: 4.8 Consensus size: 22
2283610 GATATACCAT
*
2283620 CTCATAAGAGCTTACCGATTTCAG
1 CTCA-AAGAGCTTACTG-TTTCAG
* * *
2283644 CTCGTATGAACTTACTG-TTCAG
1 CTC-AAAGAGCTTACTGTTTCAG
2283666 CTCGAAAGAGCTTACTGTTTCAG
1 CTC-AAAGAGCTTACTGTTTCAG
*
2283689 CTCAATAGAG-TGTACCGTTTCAG
1 CTCAA-AGAGCT-TACTGTTTCAG
*
2283712 CTCATTAGAGCTTACTGTT
1 CTCA-AAGAGCTTACTGTT
2283731 CATCAGCTTA
Statistics
Matches: 71, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
22 22 0.31
23 36 0.51
24 13 0.18
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (22 bp):
CTCAAAGAGCTTACTGTTTCAG
Found at i:2285132 original size:11 final size:11
Alignment explanation
Indices: 2285116--2285145 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2285106 ATTTTTTTCC
2285116 AAAAATAAAAT
1 AAAAATAAAAT
2285127 AAAAATAAAAT
1 AAAAATAAAAT
2285138 -AAAATAAA
1 AAAAATAAA
2285146 GTAAGTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:2286853 original size:41 final size:41
Alignment explanation
Indices: 2286805--2286885 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
2286795 ATAGGACAAG
2286805 TCTAAATTTTGCTTGTCTAGAAATAAGGTCTTTAGGATCCA
1 TCTAAATTTTGCTTGTCTAGAAATAAGGTCTTTAGGATCCA
2286846 TCTAAATTTTGCTTGTCTAGAAATAAGGTCTTTAGGATCC
1 TCTAAATTTTGCTTGTCTAGAAATAAGGTCTTTAGGATCC
2286886 TTATAGTGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (41 bp):
TCTAAATTTTGCTTGTCTAGAAATAAGGTCTTTAGGATCCA
Found at i:2291548 original size:7 final size:7
Alignment explanation
Indices: 2291536--2291563 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
2291526 ATTTTAAAAG
2291536 TAAATAA
1 TAAATAA
2291543 TAAATAA
1 TAAATAA
2291550 TAAATAA
1 TAAATAA
2291557 TAAATAA
1 TAAATAA
2291564 ATTTATATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
TAAATAA
Found at i:2291910 original size:12 final size:12
Alignment explanation
Indices: 2291893--2291926 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
2291883 CGGCCCGCCC
2291893 ATATTATTTTTT
1 ATATTATTTTTT
*
2291905 ATATTAATTTTT
1 ATATTATTTTTT
2291917 ATATTATTTT
1 ATATTATTTT
2291927 AATATATATA
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
ATATTATTTTTT
Found at i:2291925 original size:11 final size:11
Alignment explanation
Indices: 2291893--2291931 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
2291883 CGGCCCGCCC
2291893 ATATTATTTTTT
1 ATATTA-TTTTT
2291905 ATATTAATTTTT
1 ATATT-ATTTTT
*
2291917 ATATTATTTTA
1 ATATTATTTTT
2291928 ATAT
1 ATAT
2291932 ATATATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 9 0.36
12 15 0.60
13 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:2292168 original size:22 final size:22
Alignment explanation
Indices: 2292143--2292185 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2292133 TATCTAAACA
2292143 ATAAAAACAAAATAGTAGCAAC
1 ATAAAAACAAAATAGTAGCAAC
* **
2292165 ATAATAGTAAAATAGTAGCAA
1 ATAAAAACAAAATAGTAGCAA
2292186 AATAGAGAGA
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:0.60, C:0.09, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAAAAACAAAATAGTAGCAAC
Found at i:2292189 original size:11 final size:11
Alignment explanation
Indices: 2292150--2292190 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
2292140 ACAATAAAAA
2292150 CAAAATAGTAG
1 CAAAATAGTAG
* *
2292161 CAACATAATAG
1 CAAAATAGTAG
*
2292172 TAAAATAGTAG
1 CAAAATAGTAG
2292183 CAAAATAG
1 CAAAATAG
2292191 AGAGAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:2292198 original size:22 final size:22
Alignment explanation
Indices: 2292151--2292200 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
2292141 CAATAAAAAC
* *
2292151 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAGCAAAATAAGAGT
2292173 AAAATAGTAGCAAAATAGAGAG-
1 AAAATAGTAGCAAAATA-AGAGT
2292195 AAAATA
1 AAAATA
2292201 ATAAGAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.60, C:0.06, G:0.16, T:0.18
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGT
Found at i:2300459 original size:3 final size:3
Alignment explanation
Indices: 2300451--2300479 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2300441 ATCAAATTCT
2300451 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
2300480 TTTTTGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:2303399 original size:88 final size:88
Alignment explanation
Indices: 2303245--2303424 Score: 324
Period size: 88 Copynumber: 2.0 Consensus size: 88
2303235 CTTCTTTACC
* *
2303245 CTTGGCAAGTAACTCAAACATTGACAATCTTCTATTTCCTTTGTGCCACTTCTTAGGAGTCCCAT
1 CTTGGCAAGTAACTCAAACATTGACAATCTTCTATTTCCTTTGTGCCACTTCCTAGGAGTCACAT
2303310 ATGTAAAGATTTCAATAAAGAGA
66 ATGTAAAGATTTCAATAAAGAGA
*
2303333 CTTGGCAAGTAACTCAAACTTTGACAATCTTCTATTTCCTTTGTGCCACTTCCTAGGAGTCACAT
1 CTTGGCAAGTAACTCAAACATTGACAATCTTCTATTTCCTTTGTGCCACTTCCTAGGAGTCACAT
*
2303398 ATGTAAAGATTTTAATAAAGAGA
66 ATGTAAAGATTTCAATAAAGAGA
2303421 CTTG
1 CTTG
2303425 AAGAAGTTGA
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (88 bp):
CTTGGCAAGTAACTCAAACATTGACAATCTTCTATTTCCTTTGTGCCACTTCCTAGGAGTCACAT
ATGTAAAGATTTCAATAAAGAGA
Done.