Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 41 of 310
Found at i:11809762 original size:21 final size:19
Alignment explanation
Indices: 11809716--11809762 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
11809706 TTATTTTCTA
11809716 TTCTTTTCTCCTTCTCATT
1 TTCTTTTCTCCTTCTCATT
*
11809735 TTGTTTTCCTGCCTTCTTCA-T
1 TTCTTTT-CT-CCTTC-TCATT
11809756 TTCTTTT
1 TTCTTTT
11809763 AACGTAGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 6 0.26
20 2 0.09
21 12 0.52
22 3 0.13
ACGTcount: A:0.04, C:0.28, G:0.04, T:0.64
Consensus pattern (19 bp):
TTCTTTTCTCCTTCTCATT
Found at i:11811422 original size:17 final size:16
Alignment explanation
Indices: 11811400--11811436 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
11811390 GGAGAGAATT
11811400 TAAATAACAAAAATAAA
1 TAAATAACAAAAA-AAA
*
11811417 TAAATAAGAAAAAAAA
1 TAAATAACAAAAAAAA
11811433 TAAA
1 TAAA
11811437 CAAACGACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (16 bp):
TAAATAACAAAAAAAA
Found at i:11835217 original size:18 final size:18
Alignment explanation
Indices: 11835194--11835228 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11835184 GACTTTCTGA
*
11835194 CACCCAAGCATGTTCCTT
1 CACCCAAACATGTTCCTT
11835212 CACCCAAACATGTTCCT
1 CACCCAAACATGTTCCT
11835229 CCTCTGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.40, G:0.09, T:0.26
Consensus pattern (18 bp):
CACCCAAACATGTTCCTT
Found at i:11835941 original size:23 final size:22
Alignment explanation
Indices: 11835910--11835960 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
11835900 CTTTATTTGA
11835910 TAAAATG-TTTTGATATAACAAAT
1 TAAAATGTTTTTGA-ATAA-AAAT
*
11835933 TAAAGTGTTTTTGAATAAAAAT
1 TAAAATGTTTTTGAATAAAAAT
11835955 TAAAAT
1 TAAAAT
11835961 TGAACAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.36
23 10 0.40
24 6 0.24
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (22 bp):
TAAAATGTTTTTGAATAAAAAT
Found at i:11837684 original size:14 final size:14
Alignment explanation
Indices: 11837665--11837695 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11837655 CCAAAATTTG
11837665 GAGGATTGAAAATT
1 GAGGATTGAAAATT
*
11837679 GAGGATTGAGAATT
1 GAGGATTGAAAATT
11837693 GAG
1 GAG
11837696 AATCTAGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.35, T:0.26
Consensus pattern (14 bp):
GAGGATTGAAAATT
Found at i:11837811 original size:15 final size:15
Alignment explanation
Indices: 11837791--11837823 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
11837781 CTTTCAGTCA
11837791 TTGGAA-AAGTTACTG
1 TTGGAATAA-TTACTG
11837806 TTGGAATAATTACTG
1 TTGGAATAATTACTG
11837821 TTG
1 TTG
11837824 ACAGGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.39
Consensus pattern (15 bp):
TTGGAATAATTACTG
Found at i:11838930 original size:53 final size:53
Alignment explanation
Indices: 11838751--11838931 Score: 215
Period size: 54 Copynumber: 3.4 Consensus size: 53
11838741 AATATTTTTT
* * * *
11838751 TTGGGTGTTGGGACACTAATGGTC-GACACCCTTGTACCAGA--TTAAAAAAATT
1 TTGGGTGCTGGGACACTGATGGCCAG-CACCCTTGTACCAGATTTTAAAAAAA-A
* * *
11838803 TTGGGTGCTGGGACATTGATGGCTAGCACCCTTGTACCATATTTTTAAAAAAAA
1 TTGGGTGCTGGGACACTGATGGCCAGCACCCTTGTACCAGA-TTTTAAAAAAAA
* * *
11838857 ATGGGTGTTGGGACATTGATGGCCAGCACCCTTGTACCAGATTTTAAAAAAAA
1 TTGGGTGCTGGGACACTGATGGCCAGCACCCTTGTACCAGATTTTAAAAAAAA
*
11838910 TTGTGTGCTGGGACACTGATGG
1 TTGGGTGCTGGGACACTGATGG
11838932 TTAGCACCTC
Statistics
Matches: 110, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
52 33 0.30
53 31 0.28
54 37 0.34
55 9 0.08
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (53 bp):
TTGGGTGCTGGGACACTGATGGCCAGCACCCTTGTACCAGATTTTAAAAAAAA
Found at i:11838938 original size:53 final size:53
Alignment explanation
Indices: 11838751--11838939 Score: 222
Period size: 53 Copynumber: 3.6 Consensus size: 53
11838741 AATATTTTTT
* * * *
11838751 TTGGGTGTTGGGACACTAATGG-TCGACACCCTTGTACCAGA--TTAAAAAAATT
1 TTGGGTGCTGGGACACTGATGGCTAG-CACCCTTGTACCAGATTTTAAAAAAA-A
* *
11838803 TTGGGTGCTGGGACATTGATGGCTAGCACCCTTGTACCATATTTTTAAAAAAAA
1 TTGGGTGCTGGGACACTGATGGCTAGCACCCTTGTACCAGA-TTTTAAAAAAAA
* * * *
11838857 ATGGGTGTTGGGACATTGATGGCCAGCACCCTTGTACCAGATTTTAAAAAAAA
1 TTGGGTGCTGGGACACTGATGGCTAGCACCCTTGTACCAGATTTTAAAAAAAA
* *
11838910 TTGTGTGCTGGGACACTGATGGTTAGCACC
1 TTGGGTGCTGGGACACTGATGGCTAGCACC
11838940 TCTTCAATAT
Statistics
Matches: 117, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 33 0.28
53 38 0.32
54 37 0.32
55 9 0.08
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (53 bp):
TTGGGTGCTGGGACACTGATGGCTAGCACCCTTGTACCAGATTTTAAAAAAAA
Found at i:11841145 original size:32 final size:32
Alignment explanation
Indices: 11841109--11841204 Score: 106
Period size: 32 Copynumber: 3.0 Consensus size: 32
11841099 AGATATAACT
*
11841109 TTTAAATGATTATCAATTTAAAGCAATAAATA
1 TTTAAATGATAATCAATTTAAAGCAATAAATA
* * *
11841141 TTTAAAAT-ATAATTTAATTGAAA-AAATAAATA
1 TTT-AAATGATAA-TCAATTTAAAGCAATAAATA
*
11841173 TTTAAATGATAAATCAATTTAATGCAATAAAT
1 TTTAAATGAT-AATCAATTTAAAGCAATAAAT
11841205 TTAATTTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
31 4 0.08
32 26 0.51
33 21 0.41
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (32 bp):
TTTAAATGATAATCAATTTAAAGCAATAAATA
Found at i:11841201 original size:65 final size:67
Alignment explanation
Indices: 11841109--11841241 Score: 184
Period size: 69 Copynumber: 2.0 Consensus size: 67
11841099 AGATATAACT
* *
11841109 TTTAAATGATTATCAATTTAAAGCAATAAA-T-ATTT-AAAATATA-ATTTAATTGAAAAAATAA
1 TTTAAATGATAATCAATTTAAAGCAATAAATTAATTTAAAAATA-ACATTTAATTGAAAAAACAA
11841170 ATA
65 ATA
*
11841173 TTTAAATGATAAATCAATTTAATGCAATAAATTTAATTTAAAAATAACATTTAATTGAAAAAACA
1 TTTAAATGAT-AATCAATTTAAAGCAATAAA-TTAATTTAAAAATAACATTTAATTGAAAAAACA
11841238 AATA
64 AATA
11841242 ATAAATTTAA
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
64 10 0.17
65 18 0.30
67 1 0.02
68 5 0.08
69 26 0.43
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (67 bp):
TTTAAATGATAATCAATTTAAAGCAATAAATTAATTTAAAAATAACATTTAATTGAAAAAACAAA
TA
Found at i:11841226 original size:18 final size:17
Alignment explanation
Indices: 11841144--11841234 Score: 71
Period size: 18 Copynumber: 5.2 Consensus size: 17
11841134 ATAAATATTT
11841144 AAAATATAATTTAATTGAA
1 AAAATA-AATTTAATTG-A
*
11841163 AAAATAAATATTTAAATGA
1 AAAAT-AA-ATTTAATTGA
* *
11841182 TAAATCAATTTAA-TG-
1 AAAATAAATTTAATTGA
* *
11841197 -CAATAAATTTAATTTA
1 AAAATAAATTTAATTGA
11841213 AAAATAACATTTAATTGA
1 AAAATAA-ATTTAATTGA
11841231 AAAA
1 AAAA
11841235 ACAAATAATA
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
14 10 0.17
15 1 0.02
16 2 0.03
17 11 0.19
18 14 0.24
19 11 0.19
20 9 0.16
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (17 bp):
AAAATAAATTTAATTGA
Found at i:11841287 original size:45 final size:49
Alignment explanation
Indices: 11841211--11841306 Score: 128
Period size: 47 Copynumber: 2.0 Consensus size: 49
11841201 AAATTTAATT
*
11841211 TAAAAATAACATTTAATTGAAAAAACAAATAA-TAAATTTAAAATT-TA
1 TAAAAATAACATGTAATTGAAAAAACAAATAATTAAATTTAAAATTATA
* * *
11841258 TAAAAATAGCATGTAATT-AAAAAA-TAATAATTAAATTTAACATTATA
1 TAAAAATAACATGTAATTGAAAAAACAAATAATTAAATTTAAAATTATA
11841305 TA
1 TA
11841307 TTAAGTGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
45 5 0.12
46 18 0.42
47 20 0.47
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.33
Consensus pattern (49 bp):
TAAAAATAACATGTAATTGAAAAAACAAATAATTAAATTTAAAATTATA
Found at i:11841435 original size:38 final size:38
Alignment explanation
Indices: 11841393--11841473 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 38
11841383 AATGATCGGT
* * *
11841393 TTCAGGTTATGTCAGGCCTTGGCC-ACTAAGTGGCTGGC
1 TTCAGGTCATGTCAGGCCATGGCCTA-TAAGTGGCTGAC
*
11841431 TTCAGGTCGTGTCAGGCCATGGCCTATAAGTGGCTGAC
1 TTCAGGTCATGTCAGGCCATGGCCTATAAGTGGCTGAC
11841469 TTCAG
1 TTCAG
11841474 CAGGTGCCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
38 37 0.97
39 1 0.03
ACGTcount: A:0.17, C:0.23, G:0.31, T:0.28
Consensus pattern (38 bp):
TTCAGGTCATGTCAGGCCATGGCCTATAAGTGGCTGAC
Found at i:11843192 original size:20 final size:18
Alignment explanation
Indices: 11843154--11843192 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
11843144 ATGTTTTGTA
*
11843154 TTGAGATTTTTGGTGAAT
1 TTGAGATTTTGGGTGAAT
11843172 TTGAGTATTTTGGGTTGAAT
1 TTGAG-ATTTTGGG-TGAAT
11843192 T
1 T
11843193 GAAAATGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (18 bp):
TTGAGATTTTGGGTGAAT
Found at i:11843816 original size:42 final size:42
Alignment explanation
Indices: 11843715--11843873 Score: 178
Period size: 43 Copynumber: 3.7 Consensus size: 42
11843705 AATGTGATAT
* *
11843715 CGTGTAAGACCACGTCTGGGACGTTGGCATCGGTTTGA-GATTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATC-GTAT-ATGA-TTA
* * * *
11843759 TGTGTAAGACCATGTCTGGGACGTTGGCGTCGTATATGATTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCGTATATGATTA
* *
11843801 CGTGTAAGACCATGTCTAGGACAG-TGGCATCGTTATTTGATTA
1 CGTGTAAGACCACGTCTAGGAC-GTTGGCATCG-TATATGATTA
*
11843844 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCACGTCTAGGACGTTGGCAT
11843874 TGTACGAGCC
Statistics
Matches: 101, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
42 32 0.32
43 41 0.41
44 28 0.28
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTAGGACGTTGGCATCGTATATGATTA
Found at i:11847279 original size:90 final size:90
Alignment explanation
Indices: 11847131--11847429 Score: 390
Period size: 90 Copynumber: 3.3 Consensus size: 90
11847121 CAAAAAAAAA
* * * *
11847131 TTACATATACAAGAA-AATACAAACATTCTACAAAACT-AGTATATGAAAATATATAATTCGACC
1 TTACATATACAAAAATAATACAAACATTTTACAAAACTGA-TATACGAAAATATAAAATTCGACC
* *
11847194 AATAAATAATACCGACTAAATTTGAT
65 AACAAATAATACGGACTAAATTTGAT
* * * *
11847220 TTACATATACAAAAATAATACGAACATTTTAGAAAATTGATATACGAAAATATAAAATTCGACCG
1 TTACATATACAAAAATAATACAAACATTTTACAAAACTGATATACGAAAATATAAAATTCGACCA
* *
11847285 GCAAATAATACGGTCTAAAATATT--T
66 ACAAATAATACGGACT-AAAT-TTGAT
* *
11847310 TTACATATCCAAAGATAATACAAACATTTTACAAAACTGATATACGAAAATATAAAATTCGACCA
1 TTACATATACAAAAATAATACAAACATTTTACAAAACTGATATACGAAAATATAAAATTCGACCA
*
11847375 ACAAATAATACGGACTAAAATTGAT
66 ACAAATAATACGGACTAAATTTGAT
* *
11847400 TTACAGATACAAAAATAATACGAACATTTT
1 TTACATATACAAAAATAATACAAACATTTT
11847430 GAATAGTAGT
Statistics
Matches: 179, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
88 2 0.01
89 17 0.09
90 153 0.85
91 5 0.03
92 2 0.01
ACGTcount: A:0.50, C:0.14, G:0.08, T:0.28
Consensus pattern (90 bp):
TTACATATACAAAAATAATACAAACATTTTACAAAACTGATATACGAAAATATAAAATTCGACCA
ACAAATAATACGGACTAAATTTGAT
Found at i:11848299 original size:26 final size:28
Alignment explanation
Indices: 11848222--11848299 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 28
11848212 AATTTTACTA
* *
11848222 TTTATTTTAAGTCATTTAGTTGATTATTT
1 TTTATTTT-AGTCATTTAGATAATTATTT
** *
11848251 TTTAATTTTAGTCATTTTTATAATTGTTT
1 TTT-ATTTTAGTCATTTAGATAATTATTT
11848280 TTT-TTTTA-TCATTTAGATAA
1 TTTATTTTAGTCATTTAGATAA
11848300 ATAGCCGTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
26 10 0.24
27 5 0.12
29 21 0.51
30 5 0.12
ACGTcount: A:0.26, C:0.04, G:0.08, T:0.63
Consensus pattern (28 bp):
TTTATTTTAGTCATTTAGATAATTATTT
Found at i:11853067 original size:24 final size:23
Alignment explanation
Indices: 11853032--11853101 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 23
11853022 TAAAAATTTT
*
11853032 TAATATATTTTTAAATTTTTTAG
1 TAATTTATTTTTAAATTTTTTAG
* *
11853055 TAACTTTATTTTTATATTGTTTTTG
1 TAA-TTTATTTTTAAATT-TTTTAG
11853080 TAATTTATAATTTTATAATTTT
1 TAATTTAT--TTTTA-AATTTT
11853102 CTATTTTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 3 0.08
24 17 0.45
25 8 0.21
26 7 0.18
27 3 0.08
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.64
Consensus pattern (23 bp):
TAATTTATTTTTAAATTTTTTAG
Found at i:11853123 original size:9 final size:9
Alignment explanation
Indices: 11853083--11853157 Score: 57
Period size: 9 Copynumber: 8.3 Consensus size: 9
11853073 GTTTTTGTAA
11853083 TTTATAA-T
1 TTTATAATT
11853091 TTTATAATT
1 TTTATAATT
11853100 TTCTAT--TT
1 TT-TATAATT
*
11853108 TTAATAATT
1 TTTATAATT
*
11853117 TTTATAATC
1 TTTATAATT
*
11853126 TTTGTAATCT
1 TTTATAAT-T
*
11853136 TTTATATTTT
1 TTTATA-ATT
*
11853146 TTTGTAATT
1 TTTATAATT
11853155 TTT
1 TTT
11853158 TATATTTATT
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
7 2 0.04
8 11 0.21
9 24 0.46
10 14 0.27
11 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.67
Consensus pattern (9 bp):
TTTATAATT
Found at i:11853149 original size:20 final size:20
Alignment explanation
Indices: 11853126--11853172 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
11853116 TTTTATAATC
*
11853126 TTTGTAATCTTTTATATTTT
1 TTTGTAATCTTTTATATTTA
*
11853146 TTTGTAATTTTTTATATTTA
1 TTTGTAATCTTTTATATTTA
11853166 TTTGTAA
1 TTTGTAA
11853173 ATTTATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.68
Consensus pattern (20 bp):
TTTGTAATCTTTTATATTTA
Found at i:11853186 original size:19 final size:19
Alignment explanation
Indices: 11853136--11853192 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
11853126 TTTGTAATCT
*
11853136 TTTATATTTT-TTTGT-AA
1 TTTATTTTTTATTTGTAAA
*
11853153 TTTTTTATATTTATTTGTAAA
1 TTTATT-T-TTTATTTGTAAA
*
11853174 TTTATTTTTTATTTTTAAA
1 TTTATTTTTTATTTGTAAA
11853193 GATTTTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
17 4 0.12
18 1 0.03
19 14 0.44
20 6 0.19
21 7 0.22
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (19 bp):
TTTATTTTTTATTTGTAAA
Found at i:11863251 original size:35 final size:35
Alignment explanation
Indices: 11863206--11863295 Score: 110
Period size: 35 Copynumber: 2.6 Consensus size: 35
11863196 AAATGTTCAC
* *
11863206 AAGAGTTAGTCCAACC-AAAACATGCCAATGCACAT
1 AAGAGATAGTCCAACCGAAAA-ATGCCAATACACAT
*
11863241 AAGAGATAGTCCAACCGAAAAATGCCAATACTCAT
1 AAGAGATAGTCCAACCGAAAAATGCCAATACACAT
* * *
11863276 AAGAGCTAGTCAAACTGAAA
1 AAGAGATAGTCCAACCGAAA
11863296 CACGCCAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
35 44 0.92
36 4 0.08
ACGTcount: A:0.46, C:0.22, G:0.16, T:0.17
Consensus pattern (35 bp):
AAGAGATAGTCCAACCGAAAAATGCCAATACACAT
Found at i:11870705 original size:13 final size:13
Alignment explanation
Indices: 11870687--11870717 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11870677 TTTGTGTTTT
*
11870687 TTTTATTTATTTA
1 TTTTATTTATTCA
11870700 TTTTATTTATTCA
1 TTTTATTTATTCA
11870713 TTTTA
1 TTTTA
11870718 AACTATGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTATTTATTCA
Found at i:11870922 original size:8 final size:8
Alignment explanation
Indices: 11870909--11870942 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
11870899 GTGTGGTCGA
11870909 TTTATTTG
1 TTTATTTG
11870917 TTTATTTG
1 TTTATTTG
*
11870925 TTTGTTTG
1 TTTATTTG
*
11870933 TTTGTTTG
1 TTTATTTG
11870941 TT
1 TT
11870943 CAATTATTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.06, C:0.00, G:0.18, T:0.76
Consensus pattern (8 bp):
TTTATTTG
Found at i:11870928 original size:4 final size:4
Alignment explanation
Indices: 11870913--11870942 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
11870903 GGTCGATTTA
*
11870913 TTTG TTTA TTTG TTTG TTTG TTTG TTTG TT
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TT
11870943 CAATTATTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.03, C:0.00, G:0.20, T:0.77
Consensus pattern (4 bp):
TTTG
Found at i:11870928 original size:12 final size:12
Alignment explanation
Indices: 11870908--11870942 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
11870898 GGTGTGGTCG
*
11870908 ATTTATTTGTTT
1 ATTTGTTTGTTT
11870920 ATTTGTTTGTTT
1 ATTTGTTTGTTT
*
11870932 GTTTGTTTGTT
1 ATTTGTTTGTT
11870943 CAATTATTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.09, C:0.00, G:0.17, T:0.74
Consensus pattern (12 bp):
ATTTGTTTGTTT
Found at i:11875038 original size:12 final size:12
Alignment explanation
Indices: 11875023--11875092 Score: 70
Period size: 12 Copynumber: 5.9 Consensus size: 12
11875013 GGGGGAAGAA
11875023 AAAAATCAAAAT
1 AAAAATCAAAAT
*
11875035 AAAAATCAAAGT
1 AAAAATCAAAAT
* *
11875047 CAAAAGCAAAA-
1 AAAAATCAAAAT
11875058 AAAAATCAAAAT
1 AAAAATCAAAAT
* *
11875070 CAAAGTCAAAAT
1 AAAAATCAAAAT
* *
11875082 GAAAATGAAAA
1 AAAAATCAAAA
11875093 AAGAGAGAAG
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
11 9 0.20
12 37 0.80
ACGTcount: A:0.70, C:0.10, G:0.07, T:0.13
Consensus pattern (12 bp):
AAAAATCAAAAT
Found at i:11875065 original size:23 final size:24
Alignment explanation
Indices: 11875024--11875092 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
11875014 GGGGAAGAAA
* *
11875024 AAAATCAAAATAAAAATCAAAGTC
1 AAAAGCAAAATAAAAATCAAAATC
11875048 AAAAGCAAAA-AAAAATCAAAATC
1 AAAAGCAAAATAAAAATCAAAATC
* *
11875071 -AAAGTCAAAATGAAAATGAAAA
1 AAAAG-CAAAATAAAAATCAAAA
11875093 AAGAGAGAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.10
23 17 0.44
24 18 0.46
ACGTcount: A:0.70, C:0.10, G:0.07, T:0.13
Consensus pattern (24 bp):
AAAAGCAAAATAAAAATCAAAATC
Found at i:11875093 original size:35 final size:35
Alignment explanation
Indices: 11875021--11875094 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
11875011 AAGGGGGAAG
*
11875021 AAAAAAATCAAAATAAAAATCAAAGTCAAAAGCAA
1 AAAAAAATCAAAATAAAAATCAAAATCAAAAGCAA
* * *
11875056 AAAAAAATCAAAATCAAAGTCAAAATGAAAATG-AA
1 AAAAAAATCAAAATAAAAATCAAAATCAAAA-GCAA
11875091 AAAA
1 AAAA
11875095 GAGAGAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 33 0.97
36 1 0.03
ACGTcount: A:0.72, C:0.09, G:0.07, T:0.12
Consensus pattern (35 bp):
AAAAAAATCAAAATAAAAATCAAAATCAAAAGCAA
Found at i:11875988 original size:7 final size:7
Alignment explanation
Indices: 11875976--11876028 Score: 56
Period size: 7 Copynumber: 7.4 Consensus size: 7
11875966 TCAAAAAAGT
11875976 ATGAAAA
1 ATGAAAA
11875983 ATGAAAAA
1 ATG-AAAA
11875991 ATG-AAA
1 ATGAAAA
11875997 ATGAAAA
1 ATGAAAA
*
11876004 ATTAAAAA
1 A-TGAAAA
11876012 ATGAAAA
1 ATGAAAA
11876019 A-GTAAAA
1 ATG-AAAA
11876026 ATG
1 ATG
11876029 GAGAGGCTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
6 7 0.18
7 18 0.46
8 14 0.36
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (7 bp):
ATGAAAA
Found at i:11875992 original size:8 final size:8
Alignment explanation
Indices: 11875979--11876019 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
11875969 AAAAAGTATG
11875979 AAAAATGA
1 AAAAATGA
11875987 AAAAATG-
1 AAAAATGA
11875994 -AAAATG-
1 AAAAATGA
*
11876000 AAAAATTA
1 AAAAATGA
11876008 AAAAATGA
1 AAAAATGA
11876016 AAAA
1 AAAA
11876020 GTAAAAATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.21
7 5 0.17
8 18 0.62
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.15
Consensus pattern (8 bp):
AAAAATGA
Found at i:11875996 original size:15 final size:15
Alignment explanation
Indices: 11875976--11876028 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 15
11875966 TCAAAAAAGT
11875976 ATGAAAAATGAAAAA
1 ATGAAAAATGAAAAA
11875991 ATG-AAAATGAAAAA
1 ATGAAAAATGAAAAA
* *
11876005 TTAAAAAATGAAAAA
1 ATGAAAAATGAAAAA
*
11876020 GT-AAAAATG
1 ATGAAAAATG
11876029 GAGAGGCTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
14 19 0.56
15 15 0.44
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (15 bp):
ATGAAAAATGAAAAA
Found at i:11875999 original size:14 final size:15
Alignment explanation
Indices: 11875979--11876026 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
11875969 AAAAAGTATG
11875979 AAAAATGAAAAAAT-
1 AAAAATGAAAAAATA
* *
11875993 GAAAATGAAAAATTA
1 AAAAATGAAAAAATA
*
11876008 AAAAATGAAAAAGTA
1 AAAAATGAAAAAATA
11876023 AAAA
1 AAAA
11876027 TGGAGAGGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (15 bp):
AAAAATGAAAAAATA
Found at i:11876002 original size:21 final size:21
Alignment explanation
Indices: 11875976--11876028 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
11875966 TCAAAAAAGT
11875976 ATGAAAAATGAAAAAATGAAA
1 ATGAAAAATGAAAAAATGAAA
*
11875997 ATGAAAAATTAAAAAATGAAA
1 ATGAAAAATGAAAAAATGAAA
*
11876018 AAGTAAAAATG
1 ATG-AAAAATG
11876029 GAGAGGCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (21 bp):
ATGAAAAATGAAAAAATGAAA
Found at i:11877853 original size:44 final size:44
Alignment explanation
Indices: 11877712--11877877 Score: 122
Period size: 44 Copynumber: 3.8 Consensus size: 44
11877702 GAAGAAGCAG
* * * *
11877712 ATCTTATC-CCTCTAAAGTTGTAGTGGGGCAGATCAAAGATGGAA-A
1 ATCTTATCTCC-CTAAAATTGTAGTGGAGCAGATTAAAG-T-CAACA
* ** * *
11877757 ATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTGAAGTCAATA
1 ATCTTATCTCCCTAAAATTGTAGTGGAGCAGATTAAAGTCAACA
* * *
11877801 ATCCTATCTCCCTAAAATTGTAGTTGAGCGGATTAAAGT-AACA
1 ATCTTATCTCCCTAAAATTGTAGTGGAGCAGATTAAAGTCAACA
* * * * *
11877844 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 -ATCTTATCTCCCTAAAATTGTAGTGGAGCAGAT
11877878 CTCATCAAGT
Statistics
Matches: 97, Mismatches: 21, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
43 5 0.05
44 60 0.62
45 30 0.31
46 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (44 bp):
ATCTTATCTCCCTAAAATTGTAGTGGAGCAGATTAAAGTCAACA
Found at i:11878110 original size:44 final size:44
Alignment explanation
Indices: 11877917--11878135 Score: 128
Period size: 44 Copynumber: 5.0 Consensus size: 44
11877907 GTAGAGAAGA
* * * * *
11877917 CAAAAGAAACCAATCCTATCTCCCTAAAGTTACAGTGGAGCGGAT
1 CAAAAG-AAGCAATCTTATCTCCCTGAAGTTGCAGTAGAGCGGAT
* ** * * * *
11877962 TAAAACCA-CAGATCTTATCTCTCTGAAGTTGCAGTATAACAGAT
1 CAAAAGAAGCA-ATCTTATCTCCCTGAAGTTGCAGTAGAGCGGAT
** * *
11878006 C----GCATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-
1 CAAAAG-AAGCAATCTTATCTCCCTGAAGTTGCAGTAGAGCGGAT
* *
11878046 CAGAAGAAGCCAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGAT
1 CAAAAGAAG-CAATCTTATCTCCCTGAAGTTGCAGTAGAGCGGAT
* * * * * *
11878091 TAAAATGATG-GATCTTATCTCTCTGAATTTGCAGTAGAGTGGAT
1 CAAAA-GAAGCAATCTTATCTCCCTGAAGTTGCAGTAGAGCGGAT
11878135 C
1 C
11878136 GCATTAGACC
Statistics
Matches: 131, Mismatches: 33, Indels: 21
0.71 0.18 0.11
Matches are distributed among these distances:
40 1 0.01
41 28 0.21
42 2 0.02
43 3 0.02
44 87 0.66
45 7 0.05
46 3 0.02
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (44 bp):
CAAAAGAAGCAATCTTATCTCCCTGAAGTTGCAGTAGAGCGGAT
Found at i:11878149 original size:129 final size:127
Alignment explanation
Indices: 11877756--11878166 Score: 432
Period size: 129 Copynumber: 3.2 Consensus size: 127
11877746 AAAGATGGAA
* ** * *
11877756 AATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTGAAGTCAA-TAATCCTATCTCCCTAAAATT
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAG--AACCAATCCTATCTCCCTAAAGTT
* * * *
11877820 GTAGTTGAGCGGATTAAAGTAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCTCATC
64 GCAGTAGAGCGGATTAAAATAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
* * ** * * *
11877884 AAGTCTGATATCCCT-AAGCAGTAGTAGAGAAGACAAAAGAAACCAATCCTATCTCCCTAAAGTT
1 AA-TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAG-AACCAATCCTATCTCCCTAAAGTT
* * ** * *
11877948 ACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTATAACAGATCGCATCC
64 GCAGTAGAGCGGATTAAAATAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCAT-C
* *
11878013 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAGCCAATCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAGAA-CCAATCCTATCTCCCTAAAGTTG
* ** * ** *
11878078 CAGTAGAGCGGATTAAAATGATGGATCTTATCTCTCTGAATTTGCAGTAGAGTGGATCGCATT
65 CAGTAGAGCGGATTAAAATAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
* *
11878141 AGACCTTAT-TCCCTTAAAGTTGTAGT
1 A-ATCTTATCTCCC-TGAAGTTGTAGT
11878167 TAAAGCTATT
Statistics
Matches: 230, Mismatches: 46, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
127 2 0.01
128 108 0.47
129 120 0.52
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (127 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAGAACCAATCCTATCTCCCTAAAGTTGC
AGTAGAGCGGATTAAAATAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
Found at i:11878862 original size:18 final size:18
Alignment explanation
Indices: 11878827--11878875 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
11878817 GCAAGTTAAA
11878827 AAGAAAACAACA-AA-AG
1 AAGAAAACAACAGAACAG
*
11878843 AA-AAAGACAAGAGAACAG
1 AAGAAA-ACAACAGAACAG
11878861 AAGAAAACAACAGAA
1 AAGAAAACAACAGAA
11878876 AAGAGAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 3 0.11
16 7 0.26
17 2 0.07
18 12 0.44
19 3 0.11
ACGTcount: A:0.71, C:0.12, G:0.16, T:0.00
Consensus pattern (18 bp):
AAGAAAACAACAGAACAG
Found at i:11880312 original size:4 final size:4
Alignment explanation
Indices: 11880305--11880334 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
11880295 GGTCGATTTA
*
11880305 TTTG TTTG TTTG TTTG TTTG TTTA TTTG TT
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TT
11880335 CAATTATTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.03, C:0.00, G:0.20, T:0.77
Consensus pattern (4 bp):
TTTG
Found at i:11880322 original size:12 final size:12
Alignment explanation
Indices: 11880301--11880334 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
11880291 GTGTGGTCGA
11880301 TTTATTTGTTTG
1 TTTATTTGTTTG
*
11880313 TTTGTTTGTTTG
1 TTTATTTGTTTG
11880325 TTTATTTGTT
1 TTTATTTGTT
11880335 CAATTATTCC
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:0.06, C:0.00, G:0.18, T:0.76
Consensus pattern (12 bp):
TTTATTTGTTTG
Found at i:11882044 original size:36 final size:36
Alignment explanation
Indices: 11882004--11882078 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
11881994 AATCCCCCCA
* * *
11882004 AAACA-CACCAAATGCTCATAAGAGTTAGTCCAACTG
1 AAACATCA-CAAATGCTCATAAGAGCTACTCCAACCG
* *
11882040 AAACATGACAATTGCTCATAAGAGCTACTCCAACCG
1 AAACATCACAAATGCTCATAAGAGCTACTCCAACCG
11882076 AAA
1 AAA
11882079 TACGTCAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
36 32 0.97
37 1 0.03
ACGTcount: A:0.43, C:0.25, G:0.13, T:0.19
Consensus pattern (36 bp):
AAACATCACAAATGCTCATAAGAGCTACTCCAACCG
Found at i:11889827 original size:29 final size:28
Alignment explanation
Indices: 11889785--11889841 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
11889775 AATGCACCCC
11889785 AACTTCTACTTCGGTACCTGATTTCCTG
1 AACTTCTACTTCGGTACCTGATTTCCTG
*
11889813 NAACTTCTACTTCGGTACCTTATTTCCTG
1 -AACTTCTACTTCGGTACCTGATTTCCTG
11889842 CTGAAAGAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.18, C:0.28, G:0.12, T:0.40
Consensus pattern (28 bp):
AACTTCTACTTCGGTACCTGATTTCCTG
Found at i:11890602 original size:24 final size:24
Alignment explanation
Indices: 11890568--11890613 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11890558 TATCTGAAAT
* *
11890568 ATAAATTTTAAATATTTTTAAACA
1 ATAAATATTAAATATTTATAAACA
*
11890592 ATAAATATTAATTATTTATAAA
1 ATAAATATTAAATATTTATAAA
11890614 ATTTAATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAACA
Found at i:11894296 original size:14 final size:14
Alignment explanation
Indices: 11894277--11894305 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11894267 CAATTCGCCC
11894277 GAATGGCGATTTTT
1 GAATGGCGATTTTT
11894291 GAATGGCGATTTTT
1 GAATGGCGATTTTT
11894305 G
1 G
11894306 TAACTTGGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.31, T:0.41
Consensus pattern (14 bp):
GAATGGCGATTTTT
Found at i:11898065 original size:18 final size:18
Alignment explanation
Indices: 11898030--11898067 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11898020 ATTCTTTCTG
**
11898030 ACTTCCCATATCTTCCTC
1 ACTTCCCATATCCCCCTC
11898048 ACTTCCCATATCCCCCTC
1 ACTTCCCATATCCCCCTC
11898066 AC
1 AC
11898068 AAGTATTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.50, G:0.00, T:0.32
Consensus pattern (18 bp):
ACTTCCCATATCCCCCTC
Found at i:11901855 original size:23 final size:24
Alignment explanation
Indices: 11901829--11901882 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
11901819 TTAATTGAAT
*
11901829 ATGTTCGTGAACAT-TAAACGAAC
1 ATGTTCATGAACATATAAACGAAC
**
11901852 ATGTTCATGAACATATAATTGAAC
1 ATGTTCATGAACATATAAACGAAC
11901876 ATGTTCA
1 ATGTTCA
11901883 CAAACAATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (24 bp):
ATGTTCATGAACATATAAACGAAC
Found at i:11910448 original size:12 final size:12
Alignment explanation
Indices: 11910431--11910470 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
11910421 TAACTCAAAA
*
11910431 AAATTTAATTTT
1 AAATTTAATTAT
11910443 AAATTTAACTTAT
1 AAATTTAA-TTAT
11910456 AAA-TTAATTAT
1 AAATTTAATTAT
11910467 AAAT
1 AAAT
11910471 AATATATGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 7 0.28
12 12 0.48
13 6 0.24
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (12 bp):
AAATTTAATTAT
Found at i:11912263 original size:28 final size:28
Alignment explanation
Indices: 11912223--11912278 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
11912213 TTTCAAAAGT
11912223 TAATATCATGTTTACTTATGATTGAACA
1 TAATATCATGTTTACTTATGATTGAACA
11912251 TAATATCATGTTTACTTATGATTGAACA
1 TAATATCATGTTTACTTATGATTGAACA
11912279 AAAATTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.43
Consensus pattern (28 bp):
TAATATCATGTTTACTTATGATTGAACA
Found at i:11914755 original size:34 final size:31
Alignment explanation
Indices: 11914713--11914778 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 31
11914703 TCATTTACCA
*
11914713 TTACTTTCAAATTT-AATTTTTTAAAATAATCAT
1 TTACTTTC-AATTTCAA-ATTTTAAAA-AATCAT
11914746 TTACGTTTCAATTTCAAATTTTAAAAAATCAT
1 TTAC-TTTCAATTTCAAATTTTAAAAAATCAT
11914778 T
1 T
11914779 AATAATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 7 0.23
33 17 0.57
34 6 0.20
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (31 bp):
TTACTTTCAATTTCAAATTTTAAAAAATCAT
Found at i:11915472 original size:15 final size:15
Alignment explanation
Indices: 11915452--11915505 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
11915442 ATAATGTAAA
11915452 ATTTTATTAGTATAT
1 ATTTTATTAGTATAT
* * *
11915467 ATTTTATTTGAAAAT
1 ATTTTATTAGTATAT
*
11915482 ATTTTATATAATATAT
1 ATTTTAT-TAGTATAT
11915498 ATTATTAT
1 ATT-TTAT
11915506 ATTTTATACA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
15 19 0.63
16 7 0.23
17 4 0.13
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (15 bp):
ATTTTATTAGTATAT
Found at i:11923431 original size:27 final size:27
Alignment explanation
Indices: 11923369--11923431 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
11923359 ACAATTCAAT
*
11923369 AATATAAATAATATAAAATGTGAAATTT
1 AATA-AAATAATATAAAATGTGAAATTA
*
11923397 AATTAAATAATAT-AAATAGT-AAATATA
1 AATAAAATAATATAAAAT-GTGAAAT-TA
11923424 AATAAAAT
1 AATAAAAT
11923432 TATTACTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 8 0.27
27 19 0.63
28 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (27 bp):
AATAAAATAATATAAAATGTGAAATTA
Found at i:11923545 original size:16 final size:17
Alignment explanation
Indices: 11923516--11923547 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11923506 AAAATTTTAG
11923516 GGAGAATAAAAAGTTTT
1 GGAGAATAAAAAGTTTT
11923533 GGAGAAT-AAAAGTTT
1 GGAGAATAAAAAGTTT
11923548 GAGGGAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (17 bp):
GGAGAATAAAAAGTTTT
Found at i:11923876 original size:9 final size:9
Alignment explanation
Indices: 11923859--11923895 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
11923849 TACAGTTTGA
11923859 TATTCGAAT
1 TATTCGAAT
*
11923868 TATTTGAAT
1 TATTCGAAT
*
11923877 TATTCGAGT
1 TATTCGAAT
11923886 TATTCGAAT
1 TATTCGAAT
11923895 T
1 T
11923896 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:11929317 original size:25 final size:25
Alignment explanation
Indices: 11929267--11929318 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
11929257 ATTTATCCAA
* *
11929267 AATTTCAATACTATGATGCAAGCCT
1 AATTTCAATACAAAGATGCAAGCCT
*
11929292 AATTTCAA-ACAAAGATTCAAGACCT
1 AATTTCAATACAAAGATGCAAG-CCT
11929317 AA
1 AA
11929319 AAGCTATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (25 bp):
AATTTCAATACAAAGATGCAAGCCT
Found at i:11930307 original size:21 final size:22
Alignment explanation
Indices: 11930270--11930311 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
11930260 TTTTGGCATC
11930270 ATTTTTAAAGAATGTATCAATT
1 ATTTTTAAAGAATGTATCAATT
11930292 ATTTTTCAAA-AA-GTATCAAT
1 ATTTTT-AAAGAATGTATCAAT
11930312 ACCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 8 0.42
23 3 0.16
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (22 bp):
ATTTTTAAAGAATGTATCAATT
Found at i:11930476 original size:20 final size:20
Alignment explanation
Indices: 11930451--11930494 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11930441 CTTAGAGAAA
*
11930451 ATTTT-ACTTGTTTGAAAATC
1 ATTTTAACTTGGTT-AAAATC
*
11930471 ATTTTAATTTGGTTAAAATC
1 ATTTTAACTTGGTTAAAATC
11930491 ATTT
1 ATTT
11930495 GCACTTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.32, C:0.07, G:0.09, T:0.52
Consensus pattern (20 bp):
ATTTTAACTTGGTTAAAATC
Found at i:11932493 original size:54 final size:54
Alignment explanation
Indices: 11932430--11932537 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
11932420 ATGATAATAT
11932430 TTTTCTTTATAAATGATCATATTGAACATGTTAAATTAGTTCTAGATAAGTGAA
1 TTTTCTTTATAAATGATCATATTGAACATGTTAAATTAGTTCTAGATAAGTGAA
* *
11932484 TTTTCTTTATAAATGATCATATTGAACATTTTAAATTAGTTCTAGTTAAGTGAA
1 TTTTCTTTATAAATGATCATATTGAACATGTTAAATTAGTTCTAGATAAGTGAA
11932538 CATTTTGTGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.44
Consensus pattern (54 bp):
TTTTCTTTATAAATGATCATATTGAACATGTTAAATTAGTTCTAGATAAGTGAA
Found at i:11939802 original size:40 final size:40
Alignment explanation
Indices: 11939752--11940680 Score: 1698
Period size: 40 Copynumber: 23.1 Consensus size: 40
11939742 CTCGATATAT
*
11939752 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
11939792 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
11939832 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
11939872 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
11939912 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
11939952 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
11939992 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
11940032 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
11940072 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
11940112 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
11940152 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
11940192 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
11940232 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
11940272 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
11940312 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
11940352 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
11940392 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
11940432 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
* *
11940472 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGATAT
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
*
11940512 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
11940552 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAATATA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGG---TA-A
* * * *
11940596 TATATATCCGGGTTAAATTCCGTAGGCTTCGTGCTGGTAA
1 TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
* * * *
11940636 TATATATCCAGGTTAAATCCTGCAGGCTT-AGTGCTGGTAC
1 TATATATCCGGGTCAAATCCCGCAGGCTTCA-TGCTGGTAA
11940676 TATAT
1 TATAT
11940681 CCAGGCTTAA
Statistics
Matches: 867, Mismatches: 17, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
40 829 0.96
41 2 0.00
43 2 0.00
44 34 0.04
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (40 bp):
TATATATCCGGGTCAAATCCCGCAGGCTTCATGCTGGTAA
Found at i:11948153 original size:40 final size:40
Alignment explanation
Indices: 11948103--11948227 Score: 171
Period size: 40 Copynumber: 3.1 Consensus size: 40
11948093 CTCGATATAT
11948103 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
* * * * *
11948143 TATATATCCGGGTTATATTCCACAGGCTTCGTGTTGGTAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
* *
11948183 TATATATCCGGGTTAAATCCTGCAGGCTT-AGTGCTGGTAC
1 TATATATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTAA
11948223 TATAT
1 TATAT
11948228 CCAGGCCTAA
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.34
Consensus pattern (40 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
Found at i:11958554 original size:40 final size:40
Alignment explanation
Indices: 11958504--11958628 Score: 171
Period size: 40 Copynumber: 3.1 Consensus size: 40
11958494 CTCGATATAT
11958504 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
* * * * *
11958544 TATATATCCGGGTTATATTCCACAGGCTTCGTGTTGGTAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
* *
11958584 TATATATCCGGGTTAAATCCTGCAGGCTT-AGTGCTGGTAC
1 TATATATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTAA
11958624 TATAT
1 TATAT
11958629 CCAGGCTTAA
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.34
Consensus pattern (40 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
Found at i:11960124 original size:21 final size:21
Alignment explanation
Indices: 11960095--11960140 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
11960085 TGTCCTAGGA
*
11960095 CGATGATGGGCAAATCTCATG
1 CGATAATGGGCAAATCTCATG
*
11960116 CGATAATGGGTAAATCTCATG
1 CGATAATGGGCAAATCTCATG
11960137 CGAT
1 CGAT
11960141 GATGAGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (21 bp):
CGATAATGGGCAAATCTCATG
Found at i:11960248 original size:23 final size:23
Alignment explanation
Indices: 11960230--11960274 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
11960220 CATATTTTGT
11960230 AGAGCATTTGTGGTGTATTCTGA
1 AGAGCATTTGTGGTGTATTCTGA
* *
11960253 ATAGCGTTTGTGGTGTATTCTG
1 AGAGCATTTGTGGTGTATTCTG
11960275 TCTGGACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.18, C:0.09, G:0.31, T:0.42
Consensus pattern (23 bp):
AGAGCATTTGTGGTGTATTCTGA
Found at i:11965720 original size:15 final size:16
Alignment explanation
Indices: 11965702--11965746 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
11965692 TAATAATTAT
11965702 TAAAAT-TTAAATATA
1 TAAAATATTAAATATA
11965717 TAAAATCATTAAATATA
1 TAAAAT-ATTAAATATA
*
11965734 TGAAAAAATTAAA
1 T-AAAATATTAAA
11965747 GATAAAAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 6 0.23
17 16 0.62
18 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
TAAAATATTAAATATA
Found at i:11966718 original size:18 final size:17
Alignment explanation
Indices: 11966679--11966720 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
11966669 TGTATATAAA
11966679 TAATTAAAATTAAAATT
1 TAATTAAAATTAAAATT
*
11966696 GAATTAATAACTT-AAATT
1 TAATTAA-AA-TTAAAATT
11966714 TAATTAA
1 TAATTAA
11966721 CTAAATGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.29
18 13 0.62
19 2 0.10
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
TAATTAAAATTAAAATT
Found at i:11972928 original size:46 final size:46
Alignment explanation
Indices: 11972471--11972884 Score: 765
Period size: 46 Copynumber: 9.0 Consensus size: 46
11972461 AGTGTGCTCT
*
11972471 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
11972517 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
11972563 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
11972609 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
11972655 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
11972701 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
11972747 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
11972793 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * **
11972839 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
11972885 ATGACAAAAA
Statistics
Matches: 361, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 361 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (46 bp):
CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:11974211 original size:25 final size:25
Alignment explanation
Indices: 11974183--11974230 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
11974173 GACCTCAACA
11974183 TGCTCTCTGATTACTAGCACATTAG
1 TGCTCTCTGATTACTAGCACATTAG
*
11974208 TGCTCTCTGATTATTAGCACATT
1 TGCTCTCTGATTACTAGCACATT
11974231 CAACACATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (25 bp):
TGCTCTCTGATTACTAGCACATTAG
Found at i:11978160 original size:84 final size:84
Alignment explanation
Indices: 11978019--11978235 Score: 434
Period size: 84 Copynumber: 2.6 Consensus size: 84
11978009 AGTGTGCTCT
11978019 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTATAAGACAATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTATAAGACAATGGT
11978084 TGAAAGATCTCATGGCAAC
66 TGAAAGATCTCATGGCAAC
11978103 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTATAAGACAATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTATAAGACAATGGT
11978168 TGAAAGATCTCATGGCAAC
66 TGAAAGATCTCATGGCAAC
11978187 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
11978236 ATATGAGATG
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 133 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (84 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTATAAGACAATGGT
TGAAAGATCTCATGGCAAC
Found at i:11978219 original size:46 final size:46
Alignment explanation
Indices: 11978156--11978368 Score: 259
Period size: 46 Copynumber: 4.6 Consensus size: 46
11978146 AACCTGTGTA
* * *
11978156 TAAGACAATGGTTGAAAGAT-CTCATGGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATAC-CATGGCAACCTGACATGAAATGAG
* * *
11978202 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAG
* * *
11978248 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAG
* *
11978294 TAAGACCAAGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAATGAG
* * * *
11978340 TAAGGCCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
11978369 TCACGTCAAA
Statistics
Matches: 148, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 146 0.99
47 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAG
Found at i:11978674 original size:23 final size:25
Alignment explanation
Indices: 11978629--11978675 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
11978619 AATAAATATA
*
11978629 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
11978654 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
11978676 ATGAAGGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:11992430 original size:5 final size:5
Alignment explanation
Indices: 11992420--11992444 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11992410 GACGAAAATT
11992420 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
11992445 AACCAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:11995744 original size:36 final size:36
Alignment explanation
Indices: 11995697--11995767 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
11995687 AGATCATAAG
*
11995697 TTTGGTTATCATGCAAAGATTGTATTTCTTCTTGTT
1 TTTGGTTATCATGCAAAGATTGCATTTCTTCTTGTT
11995733 TTTGGTTATCATGCAAAGATTGCATTTCTTCTTGT
1 TTTGGTTATCATGCAAAGATTGCATTTCTTCTTGT
11995768 ATGGCTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.20, C:0.13, G:0.17, T:0.51
Consensus pattern (36 bp):
TTTGGTTATCATGCAAAGATTGCATTTCTTCTTGTT
Found at i:12000826 original size:23 final size:26
Alignment explanation
Indices: 12000780--12000832 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 26
12000770 TAAAAATGTA
12000780 AAAAATCATATATAATATATAATTTT
1 AAAAATCATATATAATATATAATTTT
*
12000806 AAAAAT-ATTTATAATA-A-AATTTT
1 AAAAATCATATATAATATATAATTTT
12000829 AAAA
1 AAAA
12000833 TGTATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 10 0.38
24 1 0.04
25 9 0.35
26 6 0.23
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (26 bp):
AAAAATCATATATAATATATAATTTT
Found at i:12000855 original size:23 final size:23
Alignment explanation
Indices: 12000790--12000855 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 23
12000780 AAAAATCATA
* *
12000790 TATAATATATAATTTTAAAAATATT
1 TATAAT-TATAAATTTAAAAA-ATG
*
12000815 TATAA-TA-AAATTT-TAAAATG
1 TATAATTATAAATTTAAAAAATG
12000835 TATAATTATAAATTTAAAAAA
1 TATAATTATAAATTTAAAAAA
12000856 ATCAAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 7 0.21
21 5 0.15
22 11 0.32
23 6 0.18
25 5 0.15
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
TATAATTATAAATTTAAAAAATG
Found at i:12000962 original size:8 final size:8
Alignment explanation
Indices: 12000951--12000986 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
12000941 TTTTAATTTT
12000951 TTTTAGAA
1 TTTTAGAA
12000959 TTTTAGAA
1 TTTTAGAA
*
12000967 TTATAG-A
1 TTTTAGAA
12000974 TTTTAGAA
1 TTTTAGAA
12000982 TTTTA
1 TTTTA
12000987 TAAAAAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (8 bp):
TTTTAGAA
Found at i:12003132 original size:54 final size:54
Alignment explanation
Indices: 12003068--12003179 Score: 215
Period size: 54 Copynumber: 2.1 Consensus size: 54
12003058 TTTAGAGAGA
*
12003068 ATTGATACTGTTTGTTGGAATGATAATTTTCTAATGAAATAAAAACAAATTGAT
1 ATTGATACTGTTTGTTGGAATGATAATTTTCTAAAGAAATAAAAACAAATTGAT
12003122 ATTGATACTGTTTGTTGGAATGATAATTTTCTAAAGAAATAAAAACAAATTGAT
1 ATTGATACTGTTTGTTGGAATGATAATTTTCTAAAGAAATAAAAACAAATTGAT
12003176 ATTG
1 ATTG
12003180 GAAGTCGATG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.38
Consensus pattern (54 bp):
ATTGATACTGTTTGTTGGAATGATAATTTTCTAAAGAAATAAAAACAAATTGAT
Found at i:12006156 original size:3 final size:3
Alignment explanation
Indices: 12006148--12006175 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12006138 TGCAGATGGG
12006148 GCA GCA GCA GCA GCA GCA GCA GCA GCA G
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA G
12006176 TCAAGAGGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.36, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:12028729 original size:8 final size:8
Alignment explanation
Indices: 12028715--12028744 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
12028705 AAAAATGAAT
12028715 AGAAATGG
1 AGAAATGG
*
12028723 TGAAATGG
1 AGAAATGG
12028731 AGAAATGG
1 AGAAATGG
12028739 AGAAAT
1 AGAAAT
12028745 AAGAAACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (8 bp):
AGAAATGG
Found at i:12028893 original size:55 final size:56
Alignment explanation
Indices: 12028769--12028893 Score: 132
Period size: 55 Copynumber: 2.2 Consensus size: 56
12028759 AAATGATTAT
* * * *
12028769 GATTTCTCCAAAATGAAAATGAAATTGGAGAAAATTGAATCATTTGGAAAGAAATGTG
1 GATTTCT-TAAAATGAAAATGAAAATGGAGAAAATTGAATCATTTAGAAAGAAA-GAG
*
12028827 GTTTTCTTAAAATGAAAATGAAAAT-GAG-AAA-TGAATTCATTTAGAAATGAACA-AG
1 GATTTCTTAAAATGAAAATGAAAATGGAGAAAATTGAA-TCATTTAGAAA-GAA-AGAG
12028882 GATTTCTTAAAA
1 GATTTCTTAAAA
12028894 ATGATCACAA
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
54 4 0.07
55 25 0.43
56 6 0.10
57 17 0.29
58 6 0.10
ACGTcount: A:0.46, C:0.06, G:0.18, T:0.30
Consensus pattern (56 bp):
GATTTCTTAAAATGAAAATGAAAATGGAGAAAATTGAATCATTTAGAAAGAAAGAG
Found at i:12030178 original size:20 final size:19
Alignment explanation
Indices: 12030103--12030182 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 19
12030093 ACACATAAGC
* *
12030103 ATTTAATTAATTTTTAAAA
1 ATTTAAATAATTTTTAATA
*
12030122 ATTTTAAAATATAATTTTTTATA
1 A-TTT--AA-ATAATTTTTAATA
** *
12030145 ATTTTTATATTTTTTGAATA
1 ATTTAAATAATTTTT-AATA
12030165 ATTTAAATAATTTTTAAT
1 ATTTAAATAATTTTTAAT
12030183 TATTAAAAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
19 12 0.26
20 18 0.39
22 5 0.11
23 11 0.24
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (19 bp):
ATTTAAATAATTTTTAATA
Found at i:12030199 original size:20 final size:20
Alignment explanation
Indices: 12030151--12030199 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
12030141 TATAATTTTT
*
12030151 ATATTTTTTGAATAATTTAA
1 ATATTTTTTGAATAATTAAA
* *
12030171 ATAATTTTT-AATTATTAAAA
1 ATATTTTTTGAATAATT-AAA
12030191 ATATTTTTT
1 ATATTTTTT
12030200 TATAAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
ATATTTTTTGAATAATTAAA
Found at i:12031329 original size:29 final size:29
Alignment explanation
Indices: 12031269--12031329 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
12031259 TGTAAAATTT
*
12031269 AATTTAATACATAATTTATATTCTTTACA
1 AATTTAATACATAATTTATATTATTTACA
*
12031298 AATTTAAATATATAATGTTATA-TATTTA-A
1 AATTT-AATACATAAT-TTATATTATTTACA
12031327 AAT
1 AAT
12031330 AAATTTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 9 0.32
30 14 0.50
31 5 0.18
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (29 bp):
AATTTAATACATAATTTATATTATTTACA
Found at i:12037753 original size:33 final size:33
Alignment explanation
Indices: 12037716--12037791 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
12037706 TCCTAGTAGT
* *
12037716 CTATCTCTGTTTTGTGTTTATTCTCCCAGAGGA
1 CTATCTCTGTTATGTGTTTACTCTCCCAGAGGA
* * * * *
12037749 CTATCTTTGTTATGTGTTTACTGTTCTAGTGGA
1 CTATCTCTGTTATGTGTTTACTCTCCCAGAGGA
12037782 CTATCTCTGT
1 CTATCTCTGT
12037792 AGATGTTATG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.14, C:0.18, G:0.18, T:0.49
Consensus pattern (33 bp):
CTATCTCTGTTATGTGTTTACTCTCCCAGAGGA
Found at i:12039628 original size:12 final size:13
Alignment explanation
Indices: 12039611--12039642 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
12039601 GCAAATGTTA
12039611 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
12039623 AGTTTTGATGCAT
1 AGTTTTGATGCAT
12039636 -GTTTTGA
1 AGTTTTGA
12039643 AATGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:12057271 original size:55 final size:55
Alignment explanation
Indices: 12057194--12057469 Score: 322
Period size: 55 Copynumber: 4.9 Consensus size: 55
12057184 TCTTCTTAAT
* * *
12057194 TGTTGGAATACTGCTTCTTTTGAATCGATTGTTTATACGTTTAAATCGATTGTCA
1 TGTTGGAATATTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTCA
* *
12057249 TGTTGGAATATTGCTTCTTTTGAATTGATAATTTATATGTTTAAATCGATT-TCCA
1 TGTTGGAATATTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGT-CA
* * * * * *
12057304 CGTTGGAATATTTCTTCTTTTGAATAGATTATTTTTATGTTTAAATCAATTGTTA
1 TGTTGGAATATTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTCA
* * *
12057359 TGGTGGAATATTGCTACTTCTTTTTTTGAATCGA-TCTTTATATGTTTAAATCGATTGTTA
1 TGTTGGAATATTG---CTTC---TTTTGAATCGATTATTTATATGTTTAAATCGATTGTCA
* * *
12057419 TATTGGAATATTGCTTCTTTTGAATTGATTGTTTATATGTTTAAATCGATT
1 TGTTGGAATATTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATT
12057470 ATTACGTAGC
Statistics
Matches: 189, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
54 11 0.06
55 125 0.66
56 1 0.01
57 4 0.02
58 4 0.02
60 34 0.18
61 10 0.05
ACGTcount: A:0.25, C:0.09, G:0.16, T:0.50
Consensus pattern (55 bp):
TGTTGGAATATTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTCA
Found at i:12057386 original size:61 final size:60
Alignment explanation
Indices: 12057315--12057433 Score: 166
Period size: 60 Copynumber: 2.0 Consensus size: 60
12057305 GTTGGAATAT
* *
12057315 TTCTTCTTTTGAATAGATTATTTTTATGTTTAAATCAATTGTTATGGTGGAATATTGCTAC
1 TTCTTCTTTTGAATAGA-TATTTATATGTTTAAATCAATTGTTATAGTGGAATATTGCTAC
* * * * *
12057376 TTCTTTTTTTGAATCGATCTTTATATGTTTAAATCGATTGTTATATTGGAATATTGCT
1 TTCTTCTTTTGAATAGATATTTATATGTTTAAATCAATTGTTATAGTGGAATATTGCT
12057434 TCTTTTGAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
60 36 0.71
61 15 0.29
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.52
Consensus pattern (60 bp):
TTCTTCTTTTGAATAGATATTTATATGTTTAAATCAATTGTTATAGTGGAATATTGCTAC
Found at i:12057438 original size:115 final size:110
Alignment explanation
Indices: 12057196--12057465 Score: 328
Period size: 115 Copynumber: 2.4 Consensus size: 110
12057186 TTCTTAATTG
* * * * *
12057196 TTGGAATACTGCTTCTTTTGAATCGATTGTTTATACGTTTAAATCGATTGTCATGTTGGAATATT
1 TTGGAATATTGCTTCTTTTGAATAGATTGTTTATATGTTTAAATCAATTGTCATGGTGGAATATT
* *
12057261 GCTTCTTTTGAATTGATAATTTATATGTTTAAATCGATTTCCACG
66 GCTTCTTTTGAATCGATAATTTATATGTTTAAATCGATTTCCACA
* * * *
12057306 TTGGAATATTTCTTCTTTTGAATAGATTATTTTTATGTTTAAATCAATTGTTATGGTGGAATATT
1 TTGGAATATTGCTTCTTTTGAATAGATTGTTTATATGTTTAAATCAATTGTCATGGTGGAATATT
* * *
12057371 GCTACTTCTTTTTTTGAATCGAT-CTTTATATGTTTAAATCGATTGT-TATA
66 G---CTTC---TTTTGAATCGATAATTTATATGTTTAAATCGATT-TCCACA
*
12057421 TTGGAATATTGCTTCTTTTGAATTGATTGTTTATATGTTTAAATC
1 TTGGAATATTGCTTCTTTTGAATAGATTGTTTATATGTTTAAATC
12057466 GATTATTACG
Statistics
Matches: 135, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
110 57 0.42
113 4 0.03
115 62 0.46
116 12 0.09
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (110 bp):
TTGGAATATTGCTTCTTTTGAATAGATTGTTTATATGTTTAAATCAATTGTCATGGTGGAATATT
GCTTCTTTTGAATCGATAATTTATATGTTTAAATCGATTTCCACA
Found at i:12070059 original size:39 final size:37
Alignment explanation
Indices: 12069978--12070136 Score: 108
Period size: 38 Copynumber: 4.1 Consensus size: 37
12069968 TGGTCTGAAC
* * * *
12069978 TAAAGACATGTATTAAAGACGTCTAAACTAGGAGATATT
1 TAAA-ACAT-TATTAAAGATGTCTAAACTATGACATAAT
*
12070017 TAAAACATATATTTAAGATGTCCTAAACTATGACATAAT
1 TAAAACAT-TATTAAAGATGT-CTAAACTATGACATAAT
* * *
12070056 TAAAAACCCTTATTAAAGATGT-TCAGATTATGACATAAT
1 T-AAAA-CATTATTAAAGATGTCT-AAACTATGACATAAT
* * *
12070095 TAAAAC-TCATATAAATAATGT-TCAAATTATGACATAAT
1 TAAAACATTAT-TAAA-GATGTCT-AAACTATGACATAAT
12070133 TAAA
1 TAAA
12070137 GACTCAAACT
Statistics
Matches: 101, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
36 3 0.03
37 5 0.05
38 43 0.43
39 33 0.33
40 15 0.15
41 2 0.02
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.32
Consensus pattern (37 bp):
TAAAACATTATTAAAGATGTCTAAACTATGACATAAT
Found at i:12070116 original size:38 final size:38
Alignment explanation
Indices: 12070045--12070142 Score: 126
Period size: 38 Copynumber: 2.5 Consensus size: 38
12070035 TGTCCTAAAC
* * * *
12070045 TATGACATAATTAAAAACCCTTATTAAAGATGTTCAGAT
1 TATGACATAATT-AAAACTCATATTAAAAATGTTCAAAT
12070084 TATGACATAATTAAAACTCATA-TAAATAATGTTCAAAT
1 TATGACATAATTAAAACTCATATTAAA-AATGTTCAAAT
12070122 TATGACATAATTAAAGACTCA
1 TATGACATAATTAAA-ACTCA
12070143 AACTAATTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
37 4 0.08
38 32 0.60
39 17 0.32
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (38 bp):
TATGACATAATTAAAACTCATATTAAAAATGTTCAAAT
Found at i:12076739 original size:28 final size:28
Alignment explanation
Indices: 12076705--12076781 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 28
12076695 TCATTTACAA
12076705 ATCAATTCAATTTCACTTTTCATCAAT-
1 ATCAATTCAATTTCACTTTTCATCAATC
* * * * *
12076732 ATACAATTTAATATCAATACTT-ATCCATC
1 AT-CAATTCAATTTCACT-TTTCATCAATC
12076761 ATCAATTCAATTTC-CTTTTCA
1 ATCAATTCAATTTCACTTTTCA
12076782 ATTCCATAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
26 2 0.05
27 4 0.11
28 27 0.73
29 4 0.11
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (28 bp):
ATCAATTCAATTTCACTTTTCATCAATC
Found at i:12077281 original size:3 final size:3
Alignment explanation
Indices: 12077268--12077305 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
12077258 AATTTATTCC
*
12077268 ATA AT- ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12077306 TAAACAACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:12082859 original size:13 final size:13
Alignment explanation
Indices: 12082841--12082865 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12082831 AGGCCGTTTG
12082841 AGGGACACGGGCT
1 AGGGACACGGGCT
12082854 AGGGACACGGGC
1 AGGGACACGGGC
12082866 GTGTGCTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.48, T:0.04
Consensus pattern (13 bp):
AGGGACACGGGCT
Found at i:12086358 original size:31 final size:31
Alignment explanation
Indices: 12086282--12086384 Score: 109
Period size: 31 Copynumber: 3.3 Consensus size: 31
12086272 CTTGTCACTT
* *
12086282 GTAGCC-AAAGCTACCACTATTCACCGATCAG
1 GTAGCCGAAA-CTACCACTTTTCACTGATCAG
* *** *
12086313 GTAGCTGGTGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAACTACCACTTTTCACTGATCAG
*
12086344 GTAGCCGAAACTACCACTTTTCACTGATTAG
1 GTAGCCGAAACTACCACTTTTCACTGATCAG
12086375 TGTAGCCGAA
1 -GTAGCCGAA
12086385 GTTATTACTT
Statistics
Matches: 57, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
31 48 0.84
32 9 0.16
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAACTACCACTTTTCACTGATCAG
Found at i:12094155 original size:39 final size:37
Alignment explanation
Indices: 12094112--12094207 Score: 124
Period size: 36 Copynumber: 2.6 Consensus size: 37
12094102 TGTCCTAAAC
*
12094112 TATGACATAATTAAAAACTCTTACTAAATATGTTT-AGAT
1 TATGACATAATTAAAAACTC--A-TAAATATGTTTCAAAT
*
12094151 TATGACATAATT-AAAACTCATAAATATTTTTCAAAT
1 TATGACATAATTAAAAACTCATAAATATGTTTCAAAT
*
12094187 TATGACATAATTAAAGACTCA
1 TATGACATAATTAAAAACTCA
12094208 AACTAATTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
35 10 0.19
36 16 0.31
37 7 0.13
38 7 0.13
39 12 0.23
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.36
Consensus pattern (37 bp):
TATGACATAATTAAAAACTCATAAATATGTTTCAAAT
Found at i:12095172 original size:17 final size:19
Alignment explanation
Indices: 12095133--12095195 Score: 94
Period size: 19 Copynumber: 3.4 Consensus size: 19
12095123 ACTAAAATGT
12095133 AAAGTTGTGAAAATTGATG
1 AAAGTTGTGAAAATTGATG
* *
12095152 AAAGTTGT-AAATTTAAT-
1 AAAGTTGTGAAAATTGATG
12095169 AAAGTTGTGAAAATTGATG
1 AAAGTTGTGAAAATTGATG
12095188 AAAGTTGT
1 AAAGTTGT
12095196 AAATTTTGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
17 8 0.21
18 14 0.37
19 16 0.42
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (19 bp):
AAAGTTGTGAAAATTGATG
Found at i:12095173 original size:36 final size:36
Alignment explanation
Indices: 12095132--12095201 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
12095122 GACTAAAATG
12095132 TAAAGTTGTGAAAATTGATGAAAGTTGTAAATTTAA
1 TAAAGTTGTGAAAATTGATGAAAGTTGTAAATTTAA
12095168 TAAAGTTGTGAAAATTGATGAAAGTTGTAAATTT
1 TAAAGTTGTGAAAATTGATGAAAGTTGTAAATTT
12095202 TGTATTGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (36 bp):
TAAAGTTGTGAAAATTGATGAAAGTTGTAAATTTAA
Found at i:12095826 original size:57 final size:58
Alignment explanation
Indices: 12095694--12095834 Score: 162
Period size: 57 Copynumber: 2.4 Consensus size: 58
12095684 CTCATTATGG
* * * * *
12095694 AAAGGATTTAGCCCGGACAGGTAATCCTAATATAATACCTCTCGAGTATATGTTATAA
1 AAAGGATTTAGCCTGGACTGGTAATCCTAATATAATACCTCTCGAGCATATATTACAA
** * *
12095752 TGAGGGTTTAGCCTGGACTGGTAATCCTAAT-TGA-A-CTCTTCTGAGCATATATTACAA
1 AAAGGATTTAGCCTGGACTGGTAATCCTAATATAATACCTC-TC-GAGCATATATTACAA
12095809 AAAGGATTTAGCCTGGACTGGTAATC
1 AAAGGATTTAGCCTGGACTGGTAATC
12095835 TTGTAATGCA
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
55 3 0.04
56 3 0.04
57 37 0.54
58 26 0.38
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (58 bp):
AAAGGATTTAGCCTGGACTGGTAATCCTAATATAATACCTCTCGAGCATATATTACAA
Found at i:12099630 original size:56 final size:56
Alignment explanation
Indices: 12099570--12099697 Score: 211
Period size: 56 Copynumber: 2.3 Consensus size: 56
12099560 CAGACAGGGT
* * *
12099570 CTTACTCTCATACATATATCGAAATCACATATCGATGCCAACGTATTAAACGTGGC
1 CTTACTCGCACACATATATCGAAATCACATATCAATGCCAACGTATTAAACGTGGC
* *
12099626 CTTACTCGCACACATATATCGAAATCACATATCAATGTCAACGTATTAAACGTGGT
1 CTTACTCGCACACATATATCGAAATCACATATCAATGCCAACGTATTAAACGTGGC
12099682 CTTACTCGCACACATA
1 CTTACTCGCACACATA
12099698 CATCAATGCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 67 1.00
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (56 bp):
CTTACTCGCACACATATATCGAAATCACATATCAATGCCAACGTATTAAACGTGGC
Found at i:12100884 original size:14 final size:15
Alignment explanation
Indices: 12100865--12100893 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12100855 ATCACAAAAT
12100865 TTCACACAT-ATAAA
1 TTCACACATAATAAA
12100879 TTCACACATAATAAA
1 TTCACACATAATAAA
12100894 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:12107800 original size:16 final size:17
Alignment explanation
Indices: 12107769--12107801 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12107759 TTCATAAACA
*
12107769 TATATCACTCATTTCAT
1 TATATCAATCATTTCAT
12107786 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
12107802 GTACCAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:12108210 original size:101 final size:101
Alignment explanation
Indices: 12108037--12108292 Score: 309
Period size: 101 Copynumber: 2.6 Consensus size: 101
12108027 TTCTTTGTGC
* * * * * * * **
12108037 CATAGTCCAACTATGGTCTTACACAT--GCATTGCCATGGCCCTACCATGGTCTTACATTCGTAG
1 CATAGCCCAACTATAGTCTTACATATAAACACTGCCATGGTCCAACCATGGTCTTACATTCAAAG
*
12108100 TGTCATAACCCAGTTATGGTCTTATCATCAAAATGT
66 TGCCATAACCCAGTTATGGTCTTATCATCAAAATGT
* ** *
12108136 CATAGCTCAACTATAGTCTTACATATAATTACTGCCATGGTCCAACCATGGTTTTACATTCAAAG
1 CATAGCCCAACTATAGTCTTACATATAAACACTGCCATGGTCCAACCATGGTCTTACATTCAAAG
* * *
12108201 TGCCATAACCCAGTTATGGTCTTTTCATTAATATGT
66 TGCCATAACCCAGTTATGGTCTTATCATCAAAATGT
** * *
12108237 CATAGCCCAGTTATGGTCTTACATATAAACACTGCCATGGTCCAACCATAGTCTTA
1 CATAGCCCAACTATAGTCTTACATATAAACACTGCCATGGTCCAACCATGGTCTTA
12108293 TCCGTCAATT
Statistics
Matches: 131, Mismatches: 24, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
99 22 0.17
101 109 0.83
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (101 bp):
CATAGCCCAACTATAGTCTTACATATAAACACTGCCATGGTCCAACCATGGTCTTACATTCAAAG
TGCCATAACCCAGTTATGGTCTTATCATCAAAATGT
Found at i:12108220 original size:33 final size:32
Alignment explanation
Indices: 12108183--12108260 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
12108173 TGGTCCAACC
12108183 ATGGTTTTACATTCAA-AGTGCCATAACCCAGTT
1 ATGGTTTTACATT-AATA-TGCCATAACCCAGTT
* * *
12108216 ATGGTCTTTTCATTAATATGTCATAGCCCAGTT
1 ATGGT-TTTACATTAATATGCCATAACCCAGTT
*
12108249 ATGGTCTTACAT
1 ATGGTTTTACAT
12108261 ATAAACACTG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
32 5 0.13
33 25 0.66
34 8 0.21
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (32 bp):
ATGGTTTTACATTAATATGCCATAACCCAGTT
Found at i:12114568 original size:19 final size:19
Alignment explanation
Indices: 12114544--12114582 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
12114534 TCTCCTAATC
12114544 ATTTTTCATCCAAAAACAT
1 ATTTTTCATCCAAAAACAT
12114563 ATTTTTCATCCAAAAACAT
1 ATTTTTCATCCAAAAACAT
12114582 A
1 A
12114583 CACATTTCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.36
Consensus pattern (19 bp):
ATTTTTCATCCAAAAACAT
Found at i:12114887 original size:28 final size:26
Alignment explanation
Indices: 12114856--12114909 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 26
12114846 ATATTACTTA
12114856 TAAAATAATATTATTTTAAGTAAAATAT
1 TAAAATAATATTATTTTAA--AAAATAT
* *
12114884 TAAATTACTATTATTTTAAAAAATAT
1 TAAAATAATATTATTTTAAAAAATAT
12114910 CATTCAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 7 0.29
28 17 0.71
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (26 bp):
TAAAATAATATTATTTTAAAAAATAT
Found at i:12118353 original size:3 final size:3
Alignment explanation
Indices: 12118347--12118384 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
12118337 TAAAATGATG
*
12118347 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TTA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
12118385 GATGATGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:12121425 original size:13 final size:15
Alignment explanation
Indices: 12121404--12121440 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
12121394 TTTATTAATG
12121404 AAATATATTAAA-AT
1 AAATATATTAAATAT
12121418 AAAT-TATTAAATAT
1 AAATATATTAAATAT
*
12121432 AACTATATT
1 AAATATATT
12121441 TTATTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 7 0.35
14 9 0.45
15 4 0.20
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATATATTAAATAT
Found at i:12125015 original size:27 final size:27
Alignment explanation
Indices: 12124977--12125032 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
12124967 CTCTTGGAAG
12124977 CCGCCGATGATAAATGATTAAATTCCA
1 CCGCCGATGATAAATGATTAAATTCCA
12125004 CCGCCGATGATAAATGATTAAATTCCA
1 CCGCCGATGATAAATGATTAAATTCCA
12125031 CC
1 CC
12125033 ATTCTCCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (27 bp):
CCGCCGATGATAAATGATTAAATTCCA
Found at i:12126191 original size:3 final size:3
Alignment explanation
Indices: 12126183--12126231 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
12126173 AACTGAAAAA
12126183 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12126231 A
1 A
12126232 AAAGTTGACA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:12137030 original size:23 final size:23
Alignment explanation
Indices: 12137004--12137097 Score: 116
Period size: 23 Copynumber: 4.1 Consensus size: 23
12136994 AAGTTAGAAG
12137004 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
12137027 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
* * *
12137050 AGTGAAGTGACTTGGAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
12137073 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
12137096 AG
1 AG
12137098 ATACACACAT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.46, C:0.04, G:0.27, T:0.23
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:12141537 original size:23 final size:23
Alignment explanation
Indices: 12141511--12141604 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
12141501 AAGTTAGAAG
12141511 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
12141534 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
12141557 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
12141580 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
12141603 AG
1 AG
12141605 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:12149116 original size:6 final size:6
Alignment explanation
Indices: 12149107--12149140 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
12149097 TTAATTTCGG
12149107 TTTTGA TTTTGA TTTTGA TTTCT-A TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTT-TGA TTTTGA TTTT
12149141 TATTACAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 1 0.04
6 24 0.92
7 1 0.04
ACGTcount: A:0.15, C:0.03, G:0.12, T:0.71
Consensus pattern (6 bp):
TTTTGA
Found at i:12149133 original size:18 final size:18
Alignment explanation
Indices: 12149112--12149154 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
12149102 TTCGGTTTTG
* *
12149112 ATTTTGATTTTGATTTCT
1 ATTTTGATTTTGATTACA
*
12149130 ATTTTGATTTTTATTACA
1 ATTTTGATTTTGATTACA
12149148 ATTTTGA
1 ATTTTGA
12149155 AACACTCACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.05, G:0.09, T:0.63
Consensus pattern (18 bp):
ATTTTGATTTTGATTACA
Found at i:12149144 original size:12 final size:12
Alignment explanation
Indices: 12149107--12149144 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
12149097 TTAATTTCGG
*
12149107 TTTTGATTTTGA
1 TTTTGATTTTTA
*
12149119 TTTTGATTTCTA
1 TTTTGATTTTTA
12149131 TTTTGATTTTTA
1 TTTTGATTTTTA
12149143 TT
1 TT
12149145 ACAATTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.16, C:0.03, G:0.11, T:0.71
Consensus pattern (12 bp):
TTTTGATTTTTA
Found at i:12149238 original size:12 final size:12
Alignment explanation
Indices: 12149189--12149258 Score: 59
Period size: 12 Copynumber: 5.8 Consensus size: 12
12149179 TTTTGATACA
*
12149189 ATTTCGATTTCG
1 ATTTCGATTTTG
* *
12149201 ATCTCGATTTAG
1 ATTTCGATTTTG
* * *
12149213 AATTAGAATTTG
1 ATTTCGATTTTG
*
12149225 ATTTTGATTTTG
1 ATTTCGATTTTG
* *
12149237 ATTTGGATTTGG
1 ATTTCGATTTTG
12149249 ATTTCGATTT
1 ATTTCGATTT
12149259 AGGGTTATTT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.23, C:0.07, G:0.19, T:0.51
Consensus pattern (12 bp):
ATTTCGATTTTG
Found at i:12149274 original size:6 final size:6
Alignment explanation
Indices: 12149189--12149258 Score: 52
Period size: 6 Copynumber: 11.7 Consensus size: 6
12149179 TTTTGATACA
* * * * * *
12149189 ATTTCG ATTTCG ATCTCG ATTTAG AATTAG AATTT-G ATTTTG ATTTTG
1 ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG -ATTTCG ATTTCG ATTTCG
* *
12149237 ATTTGG ATTTGG ATTTCG ATTT
1 ATTTCG ATTTCG ATTTCG ATTT
12149259 AGGGTTATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
5 4 0.07
6 48 0.87
7 3 0.05
ACGTcount: A:0.23, C:0.07, G:0.19, T:0.51
Consensus pattern (6 bp):
ATTTCG
Found at i:12149792 original size:15 final size:15
Alignment explanation
Indices: 12149763--12149808 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
12149753 TGAAGAAAAC
* *
12149763 ATGTCTAGTAATGAT
1 ATGTCTGGTAGTGAT
*
12149778 GTGTCTGGTAGTGAT
1 ATGTCTGGTAGTGAT
*
12149793 ATGTCAGGTAGTGAT
1 ATGTCTGGTAGTGAT
12149808 A
1 A
12149809 GTGATGCATC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.26, C:0.07, G:0.30, T:0.37
Consensus pattern (15 bp):
ATGTCTGGTAGTGAT
Found at i:12151445 original size:40 final size:40
Alignment explanation
Indices: 12151386--12151488 Score: 161
Period size: 40 Copynumber: 2.6 Consensus size: 40
12151376 TAAATGTTTT
* *
12151386 TTAATATGCATGCACTGATTGTTGGTGTGTTGACTATTTA
1 TTAATATGCATGCAGTGATTATTGGTGTGTTGACTATTTA
* *
12151426 TTAATATGCATGCAGTGATTATTGGTGTGTTGGCTATTTT
1 TTAATATGCATGCAGTGATTATTGGTGTGTTGACTATTTA
*
12151466 TTAATATGCATGCAGTGAGTATT
1 TTAATATGCATGCAGTGATTATT
12151489 TTTTTATAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.45
Consensus pattern (40 bp):
TTAATATGCATGCAGTGATTATTGGTGTGTTGACTATTTA
Found at i:12152752 original size:7 final size:7
Alignment explanation
Indices: 12152740--12152771 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
12152730 GAAATGTGTA
12152740 AGAATTG
1 AGAATTG
12152747 AGAATTG
1 AGAATTG
12152754 AGAATTG
1 AGAATTG
12152761 AGAATTG
1 AGAATTG
12152768 AGAA
1 AGAA
12152772 ATACATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (7 bp):
AGAATTG
Found at i:12153107 original size:38 final size:36
Alignment explanation
Indices: 12153053--12153136 Score: 105
Period size: 36 Copynumber: 2.3 Consensus size: 36
12153043 GTTAGCCATG
***
12153053 TATACCAGCAGCCATGTATAACATATGTTAAGCAACAA
1 TATACCAGCAGCCATGTAT-AC-TAACATAAGCAACAA
*
12153091 TATACCAGCAGGCATGTATACTAACATAAGCAACAA
1 TATACCAGCAGCCATGTATACTAACATAAGCAACAA
*
12153127 TTTACCAGCA
1 TATACCAGCA
12153137 ACAAAATTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
36 21 0.51
37 2 0.05
38 18 0.44
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.23
Consensus pattern (36 bp):
TATACCAGCAGCCATGTATACTAACATAAGCAACAA
Found at i:12154207 original size:76 final size:75
Alignment explanation
Indices: 12154083--12154241 Score: 207
Period size: 76 Copynumber: 2.1 Consensus size: 75
12154073 CTCTTCTCCC
* *
12154083 AAAAATACTAAATTGTTTATTCACCAAAAAAAAATATTACTATAAAAATAAAATTAATATTTTAT
1 AAAAATACTAAATTGTTTATT-ACCAAAAAAAAATATAACTACAAAAATAAAATTAATATTTTAT
*
12154148 TATTCATA-CA
65 TATACATACCA
* *
12154158 AAAAATACTAAACTAT-TTTATT-CCAAAAAAAACATTATAATTACAAAAATAAAATTATTATTT
1 AAAAATACTAAA-T-TGTTTATTACCAAAAAAAA-A-TATAACTACAAAAATAAAATTAATATTT
12154221 TATTATACATACCA
62 TATTATACATACCA
12154235 AAAAATA
1 AAAAATA
12154242 ACATCACATA
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
74 10 0.14
75 13 0.18
76 41 0.55
77 10 0.14
ACGTcount: A:0.55, C:0.10, G:0.01, T:0.35
Consensus pattern (75 bp):
AAAAATACTAAATTGTTTATTACCAAAAAAAAATATAACTACAAAAATAAAATTAATATTTTATT
ATACATACCA
Found at i:12155180 original size:20 final size:20
Alignment explanation
Indices: 12155151--12155213 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
12155141 ATCAGTGTTC
*
12155151 TTATCTTGAATTTCAGGATT
1 TTATCCTGAATTTCAGGATT
12155171 TTATCCTGAATTTCAGGATT
1 TTATCCTGAATTTCAGGATT
* *
12155191 TTATCCTGAATTTTAGTATT
1 TTATCCTGAATTTCAGGATT
12155211 TTA
1 TTA
12155214 ATTTGAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.51
Consensus pattern (20 bp):
TTATCCTGAATTTCAGGATT
Done.