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 217 of 310
Found at i:71177281 original size:20 final size:20
Alignment explanation
Indices: 71177258--71177305 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
71177248 AATAAAAGTT
71177258 ATAAAAATTA-TTAAACTTTA
1 ATAAAAATTATTTAAA-TTTA
*
71177278 ATAAAAA-AATTTAAATTTA
1 ATAAAAATTATTTAAATTTA
*
71177297 CTAAAAATT
1 ATAAAAATT
71177306 TAATAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAAAATTATTTAAATTTA
Found at i:71179765 original size:13 final size:14
Alignment explanation
Indices: 71179736--71179768 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
71179726 AATGGGAGAT
71179736 GAAGAAAATAGTGAA
1 GAAG-AAATAGTGAA
71179751 GAAGAAATA-TGAA
1 GAAGAAATAGTGAA
71179764 GAAGA
1 GAAGA
71179769 TAGTGTGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 5 0.28
15 4 0.22
ACGTcount: A:0.61, C:0.00, G:0.27, T:0.12
Consensus pattern (14 bp):
GAAGAAATAGTGAA
Found at i:71187057 original size:10 final size:10
Alignment explanation
Indices: 71187042--71187073 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
71187032 TAAATACATT
71187042 TAATTAAAGA
1 TAATTAAAGA
71187052 TAATTAAAGA
1 TAATTAAAGA
71187062 TAATTAAA-A
1 TAATTAAAGA
71187071 TAA
1 TAA
71187074 AATCCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:71187118 original size:15 final size:15
Alignment explanation
Indices: 71187098--71187127 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
71187088 ATAATCTTAA
*
71187098 TAATTATCTTAATAT
1 TAATTATCCTAATAT
71187113 TAATTATCCTAATAT
1 TAATTATCCTAATAT
71187128 AAATAAAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:71187735 original size:1 final size:1
Alignment explanation
Indices: 71187685--71187728 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
71187675 ATATTTTCTC
* * * *
71187685 TTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
71187729 ACTTTTTATT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:71187735 original size:8 final size:8
Alignment explanation
Indices: 71187686--71187728 Score: 79
Period size: 8 Copynumber: 5.5 Consensus size: 8
71187676 TATTTTCTCT
71187686 TTTTTTTC
1 TTTTTTTC
71187694 TTTTTTTC
1 TTTTTTTC
71187702 TTTTTTTC
1 TTTTTTTC
71187710 TTTTTTTC
1 TTTTTTTC
71187718 TTTTTTT-
1 TTTTTTTC
71187725 TTTT
1 TTTT
71187729 ACTTTTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 4 0.11
8 31 0.89
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (8 bp):
TTTTTTTC
Found at i:71187745 original size:21 final size:21
Alignment explanation
Indices: 71187702--71187750 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
71187692 TCTTTTTTTC
*
71187702 TTTTTTT-CTTTTTTTCTTTT
1 TTTTTTTACTTTTTTTCTTAT
71187722 TTTTTTTACTTTTTATT-TTAT
1 TTTTTTTACTTTTT-TTCTTAT
*
71187743 TTTATTTA
1 TTTTTTTA
71187751 TGTATGTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.28
21 16 0.64
22 2 0.08
ACGTcount: A:0.10, C:0.06, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTTTTACTTTTTTTCTTAT
Found at i:71188682 original size:15 final size:14
Alignment explanation
Indices: 71188660--71188697 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
71188650 AATATCTGAA
71188660 AAAAAT-AATAAAAT
1 AAAAATAAAT-AAAT
71188674 AATAAATAAATAAAT
1 AA-AAATAAATAAAT
71188689 AAAAATAAA
1 AAAAATAAA
71188698 AATTGGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 10 0.45
16 3 0.14
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAATAAATAAAT
Found at i:71192411 original size:10 final size:10
Alignment explanation
Indices: 71192396--71192427 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
71192386 TAAATACATT
71192396 TAATTAAAGA
1 TAATTAAAGA
71192406 TAATTAAAGA
1 TAATTAAAGA
71192416 TAATTAAA-A
1 TAATTAAAGA
71192425 TAA
1 TAA
71192428 AATCCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:71192472 original size:15 final size:15
Alignment explanation
Indices: 71192452--71192481 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
71192442 ATAATCCTAA
*
71192452 TAATTATCTTAATAT
1 TAATTATCCTAATAT
71192467 TAATTATCCTAATAT
1 TAATTATCCTAATAT
71192482 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:71193876 original size:21 final size:21
Alignment explanation
Indices: 71193851--71193890 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
71193841 CGCAGCAGCC
*
71193851 TGTGTCACGACACACACACCG
1 TGTGTCACAACACACACACCG
71193872 TGTGTCACAACACACACAC
1 TGTGTCACAACACACACAC
71193891 TCTATTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.38, G:0.15, T:0.15
Consensus pattern (21 bp):
TGTGTCACAACACACACACCG
Found at i:71199557 original size:20 final size:20
Alignment explanation
Indices: 71199532--71199571 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
71199522 TTGTGAGAGA
71199532 GAACATCCCAACATCCCCTT
1 GAACATCCCAACATCCCCTT
71199552 GAACATCCCAACATCCCCTT
1 GAACATCCCAACATCCCCTT
71199572 TCATCAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.45, G:0.05, T:0.20
Consensus pattern (20 bp):
GAACATCCCAACATCCCCTT
Found at i:71199861 original size:15 final size:15
Alignment explanation
Indices: 71199841--71199878 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
71199831 CAGGTCTAAT
71199841 ACATATTCGGATCAA
1 ACATATTCGGATCAA
71199856 ACATATTCGGATCAA
1 ACATATTCGGATCAA
71199871 ACATATTC
1 ACATATTC
71199879 AGATTAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (15 bp):
ACATATTCGGATCAA
Found at i:71203647 original size:177 final size:177
Alignment explanation
Indices: 71203351--71203679 Score: 624
Period size: 177 Copynumber: 1.9 Consensus size: 177
71203341 TAATAATTTT
*
71203351 GGTGAAAATTGATTAGCACCAAGAAACTCTTCACCATCCTCGCAAGGACGAAATTGATCTTTATT
1 GGTGAAAATTAATTAGCACCAAGAAACTCTTCACCATCCTCGCAAGGACGAAATTGATCTTTATT
71203416 CACATCTAATGATCAGACAACCATCGAAGTACTTAATGGGTGTGCTTTATCCATGTAAAATTTCT
66 CACATCTAATGATCAGACAACCATCGAAGTACTTAATGGGTGTGCTTTATCCATGTAAAATTTCT
71203481 TTAATACCTTTTCCGTATAAGTATTAAAATTTCTTTAATACTTAATG
131 TTAATACCTTTTCCGTATAAGTATTAAAATTTCTTTAATACTTAATG
*
71203528 GGTGAAAATTAATTAGGACCAAGAAACTCTTCACCATCCTCGCAAGGACGAAATTGATCTTTATT
1 GGTGAAAATTAATTAGCACCAAGAAACTCTTCACCATCCTCGCAAGGACGAAATTGATCTTTATT
71203593 CACATCTAATGATC-GTACAACCATCGAAGTACTTAATGGGTGTGCTTTATCCATGTAAAATTTC
66 CACATCTAATGATCAG-ACAACCATCGAAGTACTTAATGGGTGTGCTTTATCCATGTAAAATTTC
71203657 TTTAATACCTTTTCCGTATAAGT
130 TTTAATACCTTTTCCGTATAAGT
71203680 TGATTAATGA
Statistics
Matches: 149, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
176 1 0.01
177 148 0.99
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (177 bp):
GGTGAAAATTAATTAGCACCAAGAAACTCTTCACCATCCTCGCAAGGACGAAATTGATCTTTATT
CACATCTAATGATCAGACAACCATCGAAGTACTTAATGGGTGTGCTTTATCCATGTAAAATTTCT
TTAATACCTTTTCCGTATAAGTATTAAAATTTCTTTAATACTTAATG
Found at i:71204043 original size:18 final size:18
Alignment explanation
Indices: 71204020--71204067 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
71204010 CCTGAGAAAC
71204020 TCTATATCCTTCTAGGAT
1 TCTATATCCTTCTAGGAT
*
71204038 TCTATATCCTTCTGGGAT
1 TCTATATCCTTCTAGGAT
*
71204056 TCTAAATCCTTC
1 TCTATATCCTTC
71204068 AGTGATTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.10, T:0.44
Consensus pattern (18 bp):
TCTATATCCTTCTAGGAT
Found at i:71204074 original size:18 final size:17
Alignment explanation
Indices: 71204020--71204074 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
71204010 CCTGAGAAAC
71204020 TCTATATCCTTCTAGGAT
1 TCTATATCCTTC-AGGAT
*
71204038 TCTATATCCTTCTGGGAT
1 TCTATATCCTTC-AGGAT
*
71204056 TCTAAATCCTTCAGTGAT
1 TCTATATCCTTCAG-GAT
71204074 T
1 T
71204075 TTCATATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
17 1 0.03
18 32 0.97
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.44
Consensus pattern (17 bp):
TCTATATCCTTCAGGAT
Found at i:71210915 original size:22 final size:22
Alignment explanation
Indices: 71210888--71210933 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
71210878 CTAATAGAAT
**
71210888 AAAATTATTCAAGTTAAATTAA
1 AAAATTAAACAAGTTAAATTAA
*
71210910 AAAATTAAACATGTTAAATTAA
1 AAAATTAAACAAGTTAAATTAA
71210932 AA
1 AA
71210934 TTTTCTTACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (22 bp):
AAAATTAAACAAGTTAAATTAA
Found at i:71210988 original size:16 final size:16
Alignment explanation
Indices: 71210967--71210997 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
71210957 TATTATAGAG
71210967 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
71210983 CATATATATTTGAAA
1 CATATAAATTTGAAA
71210998 TATCTTTCAA
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:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:71216235 original size:25 final size:25
Alignment explanation
Indices: 71216207--71216255 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
71216197 CTGAATTTAG
* *
71216207 AAAACATTGTAGTTAGAACTTTCTA
1 AAAACACTGTAATTAGAACTTTCTA
*
71216232 AAAACACTGTAATTAGTACTTTCT
1 AAAACACTGTAATTAGAACTTTCT
71216256 GAAACTGTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (25 bp):
AAAACACTGTAATTAGAACTTTCTA
Found at i:71223898 original size:23 final size:23
Alignment explanation
Indices: 71223813--71223899 Score: 65
Period size: 21 Copynumber: 4.0 Consensus size: 23
71223803 CTTGATCAAT
*
71223813 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* * *
71223835 A-ACGACACACGAGGTGCTTG--
1 ATACGACACACAAAGTGCCTGAA
* * * *
71223855 GTACGACACACGAGGTACCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
71223878 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
71223900 TTGGTAAAGC
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
21 31 0.63
22 1 0.02
23 17 0.35
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:71224201 original size:22 final size:21
Alignment explanation
Indices: 71224173--71224213 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
71224163 AATATCACAA
71224173 TCTCATATATCCATATCAATTT
1 TCTCATATATCCA-ATCAATTT
*
71224195 TCTCATATTTCCAATCAAT
1 TCTCATATATCCAATCAAT
71224214 ATATTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (21 bp):
TCTCATATATCCAATCAATTT
Found at i:71224298 original size:15 final size:14
Alignment explanation
Indices: 71224274--71224313 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
71224264 TATATATTAT
71224274 ATAATTCAATCAAA
1 ATAATTCAATCAAA
*
71224288 ATAATTTCAATCAAT
1 ATAA-TTCAATCAAA
71224303 ATAAATTCAAT
1 AT-AATTCAAT
71224314 AAATTCATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 17 0.74
16 2 0.09
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATTCAATCAAA
Found at i:71225047 original size:3 final size:3
Alignment explanation
Indices: 71225039--71225067 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
71225029 TCAATTTATT
71225039 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
71225068 GTTTAATGTA
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:71235230 original size:19 final size:20
Alignment explanation
Indices: 71235206--71235251 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
71235196 ATTAGTGGAG
*
71235206 TTGTTAAGTTTGTTAAA-TT
1 TTGTTAAGATTGTTAAAGTT
71235225 TTGTTAAGATTGTTAAAGTT
1 TTGTTAAGATTGTTAAAGTT
*
71235245 TAGTTAA
1 TTGTTAA
71235252 AAAGGTTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.52
Consensus pattern (20 bp):
TTGTTAAGATTGTTAAAGTT
Found at i:71239801 original size:20 final size:20
Alignment explanation
Indices: 71239778--71239817 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
71239768 GCTGTTAAGT
*
71239778 TTGTTAA-AGTTTTGTTAAAA
1 TTGTTAAGA-TTTAGTTAAAA
71239798 TTGTTAAGATTTAGTTAAAA
1 TTGTTAAGATTTAGTTAAAA
71239818 CAATTACTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (20 bp):
TTGTTAAGATTTAGTTAAAA
Found at i:71246666 original size:19 final size:20
Alignment explanation
Indices: 71246642--71246690 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
71246632 ATTTAATCAT
71246642 ATTTTTCTAAATAAAAATA-
1 ATTTTTCTAAATAAAAATAC
* *
71246661 ATTTTTAATAAATAAAATTAC
1 ATTTTT-CTAAATAAAAATAC
71246682 A-TTTTCTAA
1 ATTTTTCTAA
71246691 CTTTATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 9 0.36
20 15 0.60
21 1 0.04
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTTTCTAAATAAAAATAC
Found at i:71255342 original size:5 final size:5
Alignment explanation
Indices: 71255332--71255372 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
71255322 ATTATCATTT
71255332 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
71255373 CCTTAATACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:71263317 original size:19 final size:19
Alignment explanation
Indices: 71263293--71263330 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
71263283 AAATGTATGT
*
71263293 GGTCAAGCTACTATGTTGC
1 GGTCAAGCCACTATGTTGC
71263312 GGTCAAGCCACTATGTTGC
1 GGTCAAGCCACTATGTTGC
71263331 AGCTAAGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (19 bp):
GGTCAAGCCACTATGTTGC
Found at i:71265292 original size:26 final size:26
Alignment explanation
Indices: 71265261--71265314 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
71265251 TGCCTCAACT
*
71265261 TATTCAAAACAACTTGCATTCAATTC
1 TATTCAAAACAACTTGCATTAAATTC
71265287 TATTCAAAACAACTTGCATTAAATTC
1 TATTCAAAACAACTTGCATTAAATTC
71265313 TA
1 TA
71265315 ACATACCTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.04, T:0.35
Consensus pattern (26 bp):
TATTCAAAACAACTTGCATTAAATTC
Found at i:71267633 original size:56 final size:56
Alignment explanation
Indices: 71267536--71267644 Score: 150
Period size: 56 Copynumber: 1.9 Consensus size: 56
71267526 ACCATTGCAT
* * *
71267536 CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCACGTCTGAGACGTTGGCATCGATATGTGACTC
*
71267592 CGATATATGTGTGCGAGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGA
1 CGATATATGTGTGCGAGTAAGACCAC-GTCTGAGAC-GTTGGCATCGATATGTGA
71267645 TTACATGTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
55 1 0.02
56 45 0.96
57 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTCTGAGACGTTGGCATCGATATGTGACTC
Found at i:71276977 original size:18 final size:19
Alignment explanation
Indices: 71276954--71276995 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
71276944 TACATTTTGG
*
71276954 AAAAACCT-TTATTTGCAT
1 AAAAACCTATTATTTGCAA
*
71276972 AAAAA-CTATTATTTTCAA
1 AAAAACCTATTATTTGCAA
71276990 AAAAAC
1 AAAAAC
71276996 TGTTTTGTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAAACCTATTATTTGCAA
Found at i:71281894 original size:21 final size:21
Alignment explanation
Indices: 71281870--71281909 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
71281860 GCTCTTTCAA
71281870 CCTTATCATCAACTTTAGCAG
1 CCTTATCATCAACTTTAGCAG
71281891 CCTTATCATCAACTTTAGC
1 CCTTATCATCAACTTTAGC
71281910 TCTGAATTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (21 bp):
CCTTATCATCAACTTTAGCAG
Found at i:71295421 original size:50 final size:48
Alignment explanation
Indices: 71295310--71295492 Score: 158
Period size: 48 Copynumber: 3.8 Consensus size: 48
71295300 TCTATCAAGT
* * * *
71295310 CGATACCATGTACC-AGACATGGTCTTACACTGACTATCGA-AAT-CGAGGC
1 CGATGCCATGT-CCTAGACATGGTCTTACACTGAC-A-CCACTATACG-TGC
* * * * *
71295359 CGACGCCATGTCCTAAACATGGCCTTACACT-AGCTCTCACATATCCGTGC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGA-CAC-CAC-TATACGTGC
* * *
71295409 CGATGCCATGTCCTAGAGATGGTCTTACACTGACACCTCTATACGTGT
1 CGATGCCATGTCCTAGACATGGTCTTACACTGACACCACTATACGTGC
*
71295457 CGATGCCATGTCCCAGACATGGTCTTACACTGACAC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGACAC
71295493 ATCTCATACC
Statistics
Matches: 109, Mismatches: 18, Indels: 15
0.77 0.13 0.11
Matches are distributed among these distances:
47 1 0.01
48 45 0.41
49 27 0.25
50 33 0.30
51 3 0.03
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (48 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTGACACCACTATACGTGC
Found at i:71295479 original size:48 final size:48
Alignment explanation
Indices: 71295266--71295669 Score: 191
Period size: 46 Copynumber: 8.5 Consensus size: 48
71295256 ATAATACCAG
* * * ** *
71295266 TGCCATGTCCCAGATATGGTCTTACGCTGGCTTATCTATCAAGT--CGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACACATCTAT-ACGTGCCGA
* * * * * *
71295313 TACCATGTACCAGACATGGTCTTACACTGAC-TATCGAAATCGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACACATCTATA-CG-TGCCGA
* * * * * * *
71295362 CGCCATGTCCTAAACATGGCCTTACACTAGCTCTCA-CATATCCGTGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACT-G-ACACATC-TATACGTGCCGA
* * * *
71295412 TGCCATGTCCTAGAGATGGTCTTACACTGACACCTCTATACGTGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACACATCTATACGTGCCGA
71295460 TGCCATGTCCCAGACATGGTCTTACACTGACACATCTCATAC---CCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACACATCT-ATACGTGCCGA
* * * **
71295506 TG-CATGTCACAGACAT-GTCTTGCACTGGCTTACATCTCGA-G-GCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTATACGTGCCGA
* * * * * *
71295552 TG-CATATCCGAAACA-CGTCTTACACTAGCTCTCATCTCA-A--TGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCT-ATACGTGCCGA
* * * *
71295598 TGCCATGTCCCAAACATGGTCTTACACTGGCTC-TC-ATAATGTGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACACATCTAT-ACGT-GCCGA
*
71295646 TG-CATGTCCCATACAT-GTCTTACA
1 TGCCATGTCCCAGACATGGTCTTACA
71295670 TTAGCGCACA
Statistics
Matches: 279, Mismatches: 52, Indels: 53
0.73 0.14 0.14
Matches are distributed among these distances:
43 1 0.00
44 11 0.04
45 18 0.06
46 65 0.23
47 53 0.19
48 64 0.23
49 31 0.11
50 30 0.11
51 4 0.01
52 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
TGCCATGTCCCAGACATGGTCTTACACTGACACATCTATACGTGCCGA
Found at i:71303042 original size:46 final size:46
Alignment explanation
Indices: 71302979--71303158 Score: 159
Period size: 46 Copynumber: 3.9 Consensus size: 46
71302969 TACATTGACA
* *
71302979 CATCTCGTA-GCCTATGCATGTCCTAGACATGTCTTACACTGGCT-T
1 CATCTCG-AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
* *
71303024 ACATCTCGAGGCCGATGCATGTCCCAGACATGTTTTACACTAGCTCT
1 -CATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
* * * *** *
71303071 CGTCTCAATGTTAATGCCATGTCCGAGACATGGTCTTACACTGGCTCT
1 CATCTCGAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT
* * * *
71303119 CATAAT-GTGGCCGATACATGTCCCAGACATGTCTTGCACT
1 CAT-CTCGAGGCCGATGCATGTCCCAGACATGTCTTACACT
71303159 AGCGCACAAA
Statistics
Matches: 105, Mismatches: 24, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
45 1 0.01
46 57 0.54
47 27 0.26
48 19 0.18
49 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
CATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
Found at i:71311292 original size:21 final size:20
Alignment explanation
Indices: 71311239--71311295 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
71311229 GTTAAAATGA
*
71311239 TTTTAATCAAGTACAAATT-T
1 TTTTAAACAAGT-CAAATTGT
* *
71311259 TTTTCAACTAGTCAAATTGT
1 TTTTAAACAAGTCAAATTGT
71311279 TTTTAAAACAAGTCAAA
1 TTTT-AAACAAGTCAAA
71311296 ATAGCTCCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 6 0.20
20 14 0.47
21 10 0.33
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (20 bp):
TTTTAAACAAGTCAAATTGT
Found at i:71313445 original size:46 final size:47
Alignment explanation
Indices: 71313362--71313452 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 47
71313352 CTAAATAAAG
* *
71313362 TAAATGCTGCAAATTATGAGGTTTGAAAGTCGGAAATTT-AGGTAAT
1 TAAATGCTGCAAATTATCAGGTTTGAAAGTCGAAAATTTGAGGTAAT
* * *
71313408 TAAATGCTGCAATTTATCATGTTTTGAAAG-CTAAAATTTGAGGTA
1 TAAATGCTGCAAATTATCA-GGTTTGAAAGTCGAAAATTTGAGGTA
71313453 CTAATGTTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
46 24 0.63
47 14 0.37
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (47 bp):
TAAATGCTGCAAATTATCAGGTTTGAAAGTCGAAAATTTGAGGTAAT
Found at i:71322596 original size:25 final size:23
Alignment explanation
Indices: 71322546--71322597 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
71322536 GTCCGGGCTA
* *
71322546 CATAACGGGAAGCTCATAAGAGC
1 CATAACGGGAAGCTCAAAAGAAC
*
71322569 CATAATCGGGAAGTTCACAAAGAAC
1 CATAA-CGGGAAGCTCA-AAAGAAC
71322594 CATA
1 CATA
71322598 TTAGGAAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 10 0.42
25 9 0.38
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.15
Consensus pattern (23 bp):
CATAACGGGAAGCTCAAAAGAAC
Found at i:71322604 original size:24 final size:24
Alignment explanation
Indices: 71322553--71322643 Score: 98
Period size: 24 Copynumber: 3.8 Consensus size: 24
71322543 CTACATAACG
* **
71322553 GGAAGCTCA-TAAGAGCCATAATCG
1 GGAAGCTCACAAAGAGCCAT-ATTA
* *
71322577 GGAAGTTCACAAAGAACCATATTA
1 GGAAGCTCACAAAGAGCCATATTA
71322601 GGAAGCTCACGAAA-AGCC-TATTA
1 GGAAGCTCAC-AAAGAGCCATATTA
71322624 GGAAGCTCACAAAGAGCCAT
1 GGAAGCTCACAAAGAGCCAT
71322644 GTAAGTAGAA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
22 3 0.05
23 19 0.34
24 23 0.41
25 11 0.20
ACGTcount: A:0.41, C:0.21, G:0.22, T:0.16
Consensus pattern (24 bp):
GGAAGCTCACAAAGAGCCATATTA
Found at i:71322626 original size:23 final size:23
Alignment explanation
Indices: 71322577--71322641 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
71322567 GCCATAATCG
* *
71322577 GGAAGTTCACAAAGAACCATATTA
1 GGAAGCTCACAAAGAGCC-TATTA
71322601 GGAAGCTCACGAAA-AGCCTATTA
1 GGAAGCTCAC-AAAGAGCCTATTA
71322624 GGAAGCTCACAAAGAGCC
1 GGAAGCTCACAAAGAGCC
71322642 ATGTAAGTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
22 3 0.08
23 19 0.51
24 12 0.32
25 3 0.08
ACGTcount: A:0.42, C:0.22, G:0.22, T:0.15
Consensus pattern (23 bp):
GGAAGCTCACAAAGAGCCTATTA
Found at i:71325724 original size:11 final size:11
Alignment explanation
Indices: 71325690--71325727 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
71325680 TAATATCTTC
71325690 AAAAATAAATA
1 AAAAATAAATA
71325701 AAAGACA-AAATA
1 AAA-A-ATAAATA
71325713 AAAAATAAATA
1 AAAAATAAATA
71325724 AAAA
1 AAAA
71325728 TAATAGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
10 1 0.04
11 13 0.54
12 9 0.38
13 1 0.04
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:71327613 original size:5 final size:5
Alignment explanation
Indices: 71327605--71327633 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
71327595 GGGGGAAGGG
71327605 AGAAA AGAAA AGAAA AGAAA AGAAA AGAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAA
71327634 GAAGGGAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:71335113 original size:23 final size:23
Alignment explanation
Indices: 71335063--71335127 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
71335053 GCCATAATTG
* * * *
71335063 GGAAGTTCACATAGAACCATATCG
1 GGAAGCTCACAAAGAGCC-TATCA
71335087 GGAAGCTCACGAAA-AGCCTATCA
1 GGAAGCTCAC-AAAGAGCCTATCA
71335110 GGAAGCTCACAAAGAGCC
1 GGAAGCTCACAAAGAGCC
71335128 ATGTAACGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 3 0.09
23 18 0.51
24 12 0.34
25 2 0.06
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.14
Consensus pattern (23 bp):
GGAAGCTCACAAAGAGCCTATCA
Found at i:71335158 original size:73 final size:73
Alignment explanation
Indices: 71335081--71335274 Score: 212
Period size: 73 Copynumber: 2.7 Consensus size: 73
71335071 ACATAGAACC
* * * *
71335081 ATATCGGGAAGCTCACGAAAAGC-CTATCAGGAAGCTCACAAAGAGCCATGTAACGGGAAGCTTC
1 ATATCAGGAAGCTCAAG-AAAGCACTATCAGGAAGCTCACAAAGAGCCATGTAACAGGAAGCTCC
71335145 GGATAGCCA
65 GGATAGCCA
** * **
71335154 ATATCAGGTTGTTCAAGCGAGCACTATCAGGAAGCTCACAAAGAGCCATGTAACAGGAAGCTCCG
1 ATATCAGGAAGCTCAAGAAAGCACTATCAGGAAGCTCACAAAGAGCCATGTAACAGGAAGCTCCG
71335219 GATAGCCA
66 GATAGCCA
* * * ** * *
71335227 ATATCAGGTTA-TTTAAGTGAGCATTATCAGGAAGCTCCCAAAGAGCCA
1 ATATCAGG-AAGCTCAAGAAAGCACTATCAGGAAGCTCACAAAGAGCCA
71335275 ATTTAATGGG
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
72 3 0.03
73 101 0.96
74 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (73 bp):
ATATCAGGAAGCTCAAGAAAGCACTATCAGGAAGCTCACAAAGAGCCATGTAACAGGAAGCTCCG
GATAGCCA
Found at i:71336325 original size:13 final size:13
Alignment explanation
Indices: 71336307--71336331 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71336297 TTTACTTTAT
71336307 TATTTATCATCTG
1 TATTTATCATCTG
71336320 TATTTATCATCT
1 TATTTATCATCT
71336332 TTCCAATTTT
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:0.16, G:0.04, T:0.56
Consensus pattern (13 bp):
TATTTATCATCTG
Found at i:71336950 original size:13 final size:13
Alignment explanation
Indices: 71336911--71336995 Score: 55
Period size: 13 Copynumber: 6.5 Consensus size: 13
71336901 ATTATGTGCT
*
71336911 AAATGTGTAAATG
1 AAATGTTTAAATG
* *
71336924 AAATGATAAAATG
1 AAATGTTTAAATG
*
71336937 AAATGTTTAGATG
1 AAATGTTTAAATG
* * **
71336950 AAATGGTTATACA
1 AAATGTTTAAATG
*
71336963 AAATAGTTT-TATG
1 AAAT-GTTTAAATG
* *
71336976 AAATGATTACATG
1 AAATGTTTAAATG
71336989 AAATGTT
1 AAATGTT
71336996 ATATGAATTG
Statistics
Matches: 54, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
12 3 0.06
13 48 0.89
14 3 0.06
ACGTcount: A:0.46, C:0.02, G:0.18, T:0.34
Consensus pattern (13 bp):
AAATGTTTAAATG
Found at i:71336992 original size:26 final size:25
Alignment explanation
Indices: 71336921--71337018 Score: 79
Period size: 26 Copynumber: 3.8 Consensus size: 25
71336911 AAATGTGTAA
* *
71336921 ATGAAATGATAAAATGAAATGTTTAG
1 ATGAAATGATTAAATGAAATGTTT-T
* * **
71336947 ATGAAATGGTTATACAAAATAGTTTT
1 ATGAAATGATTAAATGAAAT-GTTTT
* *
71336973 ATGAAATGATTACATGAAATGTTAT
1 ATGAAATGATTAAATGAAATGTTTT
* *
71336998 ATGAATTGATTATAAGGAAAT
1 ATGAAATGATTA-AATGAAAT
71337019 AGATGTATGA
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
25 15 0.27
26 37 0.66
27 4 0.07
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.35
Consensus pattern (25 bp):
ATGAAATGATTAAATGAAATGTTTT
Found at i:71337010 original size:13 final size:13
Alignment explanation
Indices: 71336921--71337011 Score: 69
Period size: 13 Copynumber: 7.1 Consensus size: 13
71336911 AAATGTGTAA
* *
71336921 ATGAAATGATAAA
1 ATGAAATGATTAT
* *
71336934 ATGAAATGTTTAG
1 ATGAAATGATTAT
*
71336947 ATGAAATGGTTAT
1 ATGAAATGATTAT
** *
71336960 ACAAAAT-AGTTTT
1 ATGAAATGA-TTAT
*
71336973 ATGAAATGATTAC
1 ATGAAATGATTAT
71336986 ATGAAATG-TTAT
1 ATGAAATGATTAT
*
71336998 ATGAATTGATTAT
1 ATGAAATGATTAT
71337011 A
1 A
71337012 AGGAAATAGA
Statistics
Matches: 60, Mismatches: 15, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
12 10 0.17
13 49 0.82
14 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.16, T:0.36
Consensus pattern (13 bp):
ATGAAATGATTAT
Found at i:71337019 original size:52 final size:52
Alignment explanation
Indices: 71336921--71337029 Score: 123
Period size: 52 Copynumber: 2.1 Consensus size: 52
71336911 AAATGTGTAA
* * *
71336921 ATGAAATGATAAAATGAAATGTTTAGATGAAATGGTTATACAAAATAGTTTT
1 ATGAAATGATAAAATGAAATGTTTAGATGAAATGATTATACAAAATAGATGT
* * * *
71336973 ATGAAATGATTACATGAAATG-TTATATGAATTGATTATA-AGGAAATAGATGT
1 ATGAAATGATAAAATGAAATGTTTAGATGAAATGATTATACA--AAATAGATGT
71337025 ATGAA
1 ATGAA
71337030 TTGAGACATT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
50 1 0.02
51 15 0.31
52 32 0.67
ACGTcount: A:0.46, C:0.02, G:0.18, T:0.34
Consensus pattern (52 bp):
ATGAAATGATAAAATGAAATGTTTAGATGAAATGATTATACAAAATAGATGT
Found at i:71342997 original size:3 final size:3
Alignment explanation
Indices: 71342989--71343015 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
71342979 GAGTGAATCA
71342989 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
71343016 TTTATTGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:71349912 original size:108 final size:109
Alignment explanation
Indices: 71349720--71349934 Score: 292
Period size: 108 Copynumber: 2.0 Consensus size: 109
71349710 GTGGCCAGGC
* *
71349720 TGTGTGGCATCAGATCACTAAATCCCTAATTCCCAAATACACACACCCGTGTACCTAGGGGACAC
1 TGTGTGGCATCAGATCACTAAATCCCTAATTCCCAAATACACACACCCGTGTACCCAGAGGACAC
* * *
71349785 GGCTGTGTATAAATCG-AAAAAATTCCCAAATC-AGCCACACGGT
66 GACCGTGTATAAATCGAAAAAAATCCCCAAATCGA-CCACACGGT
** *
71349828 TGTGTGGCA-CTAGATCACTAAATTTCTAATTCCCAAATACACACGCCCGTGTACCCAGAGGACA
1 TGTGTGGCATC-AGATCACTAAATCCCTAATTCCCAAATACACACACCCGTGTACCCAGAGGACA
* * *
71349892 TGACCGTGTGTAAATTGAAAAAAATCCCCAAATCGACCACACG
65 CGACCGTGTATAAATCGAAAAAAATCCCCAAATCGACCACACG
71349935 ACCGTGTGGC
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
107 1 0.01
108 69 0.74
109 22 0.24
110 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.21
Consensus pattern (109 bp):
TGTGTGGCATCAGATCACTAAATCCCTAATTCCCAAATACACACACCCGTGTACCCAGAGGACAC
GACCGTGTATAAATCGAAAAAAATCCCCAAATCGACCACACGGT
Found at i:71362947 original size:18 final size:19
Alignment explanation
Indices: 71362919--71362965 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
71362909 ATTATAAAAA
*
71362919 AAATTTAATAAAAAATAAT
1 AAATATAATAAAAAATAAT
*
71362938 AAA-ATAATAAAAGATAAT
1 AAATATAATAAAAAATAAT
71362956 AAATATAATA
1 AAATATAATA
71362966 TTGGGCTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
AAATATAATAAAAAATAAT
Found at i:71365282 original size:12 final size:12
Alignment explanation
Indices: 71365262--71365295 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
71365252 CGAAGCCACA
* *
71365262 AGGCTGTGTGGT
1 AGGCCGTGTAGT
71365274 AGGCCGTGTAGT
1 AGGCCGTGTAGT
71365286 AGGCCGTGTA
1 AGGCCGTGTA
71365296 CTATAACACG
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:0.15, C:0.15, G:0.44, T:0.26
Consensus pattern (12 bp):
AGGCCGTGTAGT
Found at i:71366990 original size:21 final size:21
Alignment explanation
Indices: 71366964--71367005 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
71366954 CTATTTAGCC
*
71366964 ACAAAAATTAGGGGAAAATGT
1 ACAAAAATTAAGGGAAAATGT
71366985 ACAAAAATTAAGGGAAAATGT
1 ACAAAAATTAAGGGAAAATGT
71367006 TTTATCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.21, T:0.19
Consensus pattern (21 bp):
ACAAAAATTAAGGGAAAATGT
Found at i:71367777 original size:14 final size:15
Alignment explanation
Indices: 71367760--71367791 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
71367750 AAAATATGTG
71367760 AATGAAATA-ATAGA
1 AATGAAATACATAGA
71367774 AATGAAATACATAGA
1 AATGAAATACATAGA
71367789 AAT
1 AAT
71367792 TTGATATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.62, C:0.03, G:0.12, T:0.22
Consensus pattern (15 bp):
AATGAAATACATAGA
Found at i:71370251 original size:50 final size:50
Alignment explanation
Indices: 71370176--71370278 Score: 197
Period size: 50 Copynumber: 2.1 Consensus size: 50
71370166 ATGGCTAGAA
*
71370176 GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTATTTTTATGTTAAATTTTT
1 GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTATTTTTATATTAAATTTTT
71370226 GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTATTTTTATATTAAATTTTT
1 GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTATTTTTATATTAAATTTTT
71370276 GTG
1 GTG
71370279 GATATTGAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.24, C:0.02, G:0.22, T:0.51
Consensus pattern (50 bp):
GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTATTTTTATATTAAATTTTT
Found at i:71377931 original size:14 final size:14
Alignment explanation
Indices: 71377910--71377950 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
71377900 CTTACCTAAT
71377910 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* *
71377924 TTTGCAAGTTGTAA
1 TGTGCAAGTTGTGA
71377938 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
71377951 CAAGTTGCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.07, G:0.32, T:0.39
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:71382507 original size:14 final size:14
Alignment explanation
Indices: 71382486--71382526 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
71382476 CTTACCTAAT
71382486 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* *
71382500 TTTGCAAGTTGTAA
1 TGTGCAAGTTGTGA
71382514 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
71382527 CAAGTTGCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.07, G:0.32, T:0.39
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:71384763 original size:3 final size:3
Alignment explanation
Indices: 71384755--71384781 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
71384745 ATCTAGTTTT
71384755 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
71384782 ATTTAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:71387010 original size:13 final size:13
Alignment explanation
Indices: 71386992--71387017 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71386982 ATTATTTGGT
71386992 TATAAGTTGTTCA
1 TATAAGTTGTTCA
71387005 TATAAGTTGTTCA
1 TATAAGTTGTTCA
71387018 AATAGGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TATAAGTTGTTCA
Found at i:71389363 original size:28 final size:28
Alignment explanation
Indices: 71389331--71389384 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
71389321 CCACATGGTA
*
71389331 GATGAATGGGCCCATATTCGTTTCAGGG
1 GATGAATGGACCCATATTCGTTTCAGGG
71389359 GATGAATGGACCCATATTCGTTTCAG
1 GATGAATGGACCCATATTCGTTTCAG
71389385 AAATGCAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (28 bp):
GATGAATGGACCCATATTCGTTTCAGGG
Found at i:71393234 original size:49 final size:49
Alignment explanation
Indices: 71393177--71394227 Score: 1997
Period size: 49 Copynumber: 21.6 Consensus size: 49
71393167 TTAAACCCAT
71393177 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
71393226 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
71393275 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
71393324 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
71393373 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
71393422 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
71393471 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
71393520 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
71393569 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
71393618 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
71393667 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
71393716 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
71393765 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
71393814 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
71393863 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
71393912 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
71393961 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
71394010 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
71394059 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
71394108 ATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
71394155 ATGTGAAAGTGTATAT--ATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
71394202 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATACATGTGATAAG
71394228 TCCCGAAGGG
Statistics
Matches: 992, Mismatches: 9, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
47 94 0.09
49 898 0.91
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (49 bp):
ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:71394402 original size:37 final size:37
Alignment explanation
Indices: 71394346--71394424 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
71394336 CCGAGCTCTA
* * *
71394346 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
71394383 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
71394420 AAGAC
1 AAGAC
71394425 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:71395748 original size:24 final size:24
Alignment explanation
Indices: 71395721--71395766 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
71395711 GAATTTAACA
71395721 TTCAAAT-CAGCACACATAGTGCCT
1 TTCAAATAC-GCACACATAGTGCCT
* *
71395745 TTCAACTACGCACACGTAGTGC
1 TTCAAATACGCACACATAGTGC
71395767 TAGTATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (24 bp):
TTCAAATACGCACACATAGTGCCT
Found at i:71398180 original size:40 final size:40
Alignment explanation
Indices: 71398131--71398255 Score: 112
Period size: 40 Copynumber: 3.1 Consensus size: 40
71398121 CATTTGGATA
*
71398131 AAAACGCCGCTATAGATTGAGCATTAGCGACGCTTTCAAAC
1 AAAA-GCCGCTATAGATTGAGAATTAGCGACGCTTTCAAAC
* * * * *
71398172 AAAAGCCGCTATAGAACT-AGTATTAGCGGCGCAAATT-GAA-
1 AAAAGCCGCTATAG-ATTGAGAATTAGCGACGC--TTTCAAAC
* *
71398212 AAATGCCGCTATAGATCGAGAATTAGCGACGCTTTCCAAAC
1 AAAAGCCGCTATAGATTGAGAATTAGCGACGCTTT-CAAAC
71398253 AAA
1 AAA
71398256 CATCGTTATA
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
38 2 0.03
39 1 0.02
40 49 0.75
41 11 0.17
42 2 0.03
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (40 bp):
AAAAGCCGCTATAGATTGAGAATTAGCGACGCTTTCAAAC
Found at i:71400219 original size:40 final size:40
Alignment explanation
Indices: 71400154--71400231 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
71400144 TGCGGTACCT
* * *
71400154 TATGGTGTGTAGGGTTGGATAGGTCGATTATATCCCCATA
1 TATGGTGTGCAGGGATGGATAGGTCGATTATACCCCCATA
* * *
71400194 TATGGTGTGCAGGGATGGGTGGGTCGATTTTACCCCCA
1 TATGGTGTGCAGGGATGGATAGGTCGATTATACCCCCA
71400232 CATAGTGTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.19, C:0.15, G:0.33, T:0.32
Consensus pattern (40 bp):
TATGGTGTGCAGGGATGGATAGGTCGATTATACCCCCATA
Found at i:71408353 original size:7 final size:7
Alignment explanation
Indices: 71408343--71408546 Score: 78
Period size: 7 Copynumber: 28.1 Consensus size: 7
71408333 CTTAAATACA
71408343 AAATCCT
1 AAATCCT
71408350 AAATCCT
1 AAATCCT
*
71408357 AAAACTCT
1 AAATC-CT
71408365 AAA-CCTT
1 AAATCC-T
*
71408372 AAACCCT
1 AAATCCT
*
71408379 AAA-CCA
1 AAATCCT
71408385 AAATCACT
1 AAATC-CT
*
71408393 AAACCCTT
1 AAATCC-T
**
71408401 AAGCCCTT
1 AAATCC-T
* *
71408409 AAATACA
1 AAATCCT
71408416 AAATCCT
1 AAATCCT
71408423 AAATCCT
1 AAATCCT
*
71408430 AAAACTCT
1 AAATC-CT
71408438 AAA-CCTT
1 AAATCC-T
*
71408445 AAACCCT
1 AAATCCT
*
71408452 AAA-CCA
1 AAATCCT
71408458 AAATCACT
1 AAATC-CT
*
71408466 AAACCCTT
1 AAATCC-T
**
71408474 AAGCCCTT
1 AAATCC-T
* *
71408482 AAATACA
1 AAATCCT
71408489 AAATCCT
1 AAATCCT
71408496 AAATCCT
1 AAATCCT
*
71408503 AAAACTCT
1 AAATC-CT
71408511 AAA-CCTT
1 AAATCC-T
*
71408518 AAACCCT
1 AAATCCT
71408525 AAA-CACT
1 AAATC-CT
*
71408532 AAACCCT
1 AAATCCT
71408539 AAATCCT
1 AAATCCT
71408546 A
1 A
71408547 TACCATAAAA
Statistics
Matches: 156, Mismatches: 24, Indels: 34
0.73 0.11 0.16
Matches are distributed among these distances:
6 14 0.09
7 88 0.56
8 54 0.35
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.22
Consensus pattern (7 bp):
AAATCCT
Found at i:71408520 original size:109 final size:109
Alignment explanation
Indices: 71408405--71408840 Score: 295
Period size: 109 Copynumber: 4.1 Consensus size: 109
71408395 ACCCTTAAGC
* * * *
71408405 CCTTAAATACAAAATC-CTAAATCCTAAAACTCTAAACC-TTAAACCCTAAACCA-AAATCACTA
1 CCTTAAACACAAAA-CACTAAACCCTAAAAC-CTAAACCATAAAACCATAAACCATAAA-CACTA
71408467 AACCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAA
63 AACCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAA
* * * * * *
71408514 CCTTAAACCCTAAACACTAAACCCTAAATCCTATACCATAAAACCATAAACTATAGACACTAAAC
1 CCTTAAACACAAAACACTAAACCCTAAAACCTAAACCATAAAACCATAAACCATAAACACTAAAC
*
71408579 CCTTAAGCCCTTAAATACAAAATCCTAAATGCTAAAACTCTAAA
66 CCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAA
** * * * *
71408623 CC--AAATCATTAAACCCTTAAGCCCTTAAATA-CGAAATCCA-AAATCCA-AAATCC-TAAATC
1 CCTTAAA-CACAAAACAC-TAAACCC-TAAA-ACCTAAA-CCATAAAACCATAAA-CCATAAA-C
* * * * *
71408682 -CTAAAACCATAA-ACCTT-AA-AC-----CCTAAATCCTAACACAT-AAAA
59 ACTAAACCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAAC-TCTAAA
* * * * * * *
71408724 CC-CAAA-ATCAAAACCCATAAAACCC-AAAATCATAACCCATAAAACCCTAAACTATAGACACT
1 CCTTAAACA-CAAAACAC-T-AAACCCTAAAA-CCTAAACCATAAAACCATAAACCATAAACACT
* *
71408786 AAACCCTTAAACCCTTAAATACAAAATCCTAAATCCTAAAACTATAAA
62 AAACCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAA
*
71408834 CCGTAAA
1 CCTTAAA
71408841 AATAAATTTC
Statistics
Matches: 253, Mismatches: 44, Indels: 58
0.71 0.12 0.16
Matches are distributed among these distances:
99 1 0.00
100 7 0.03
101 34 0.13
102 25 0.10
103 4 0.02
104 2 0.01
105 2 0.01
106 2 0.01
107 5 0.02
108 18 0.07
109 111 0.44
110 36 0.14
111 6 0.02
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.21
Consensus pattern (109 bp):
CCTTAAACACAAAACACTAAACCCTAAAACCTAAACCATAAAACCATAAACCATAAACACTAAAC
CCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAA
Found at i:71408541 original size:73 final size:73
Alignment explanation
Indices: 71408250--71408528 Score: 477
Period size: 73 Copynumber: 3.8 Consensus size: 73
71408240 TATAAACACT
* * * * ***
71408250 CCCTTAAACCCTTAAATACAAATTCCTATATCCTAAAGCTCTAAACCTTAAACCCTAAACTTGAA
1 CCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACCAAAA
*
71408315 TCAGTAAA
66 TCACTAAA
*
71408323 TCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACCAAAA
1 CCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACCAAAA
71408388 TCACTAAA
66 TCACTAAA
71408396 CCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACCAAAA
1 CCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACCAAAA
71408461 TCACTAAA
66 TCACTAAA
71408469 CCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAAC
1 CCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAAC
71408529 ACTAAACCCT
Statistics
Matches: 196, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 196 1.00
ACGTcount: A:0.44, C:0.29, G:0.02, T:0.24
Consensus pattern (73 bp):
CCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACCAAAA
TCACTAAA
Found at i:71408546 original size:21 final size:22
Alignment explanation
Indices: 71408444--71408624 Score: 86
Period size: 22 Copynumber: 8.3 Consensus size: 22
71408434 CTCTAAACCT
71408444 TAAACCCTAAA-CC-AAAATCAC
1 TAAACCCTAAATCCTAAAA-CAC
** * *
71408465 TAAACCCTTAAGCCCTTAAATAC
1 TAAACCC-TAAATCCTAAAACAC
* * *
71408488 AAAATCCTAAATCCTAAAACTC
1 TAAACCCTAAATCCTAAAACAC
* *
71408510 TAAACCTTAAACCCT-AAACAC
1 TAAACCCTAAATCCTAAAACAC
* *
71408531 TAAACCCTAAATCCTATACCA-
1 TAAACCCTAAATCCTAAAACAC
* *
71408552 TAAAACCATAAA--CTATAGACAC
1 T-AAACCCTAAATCCTA-AAACAC
** * *
71408574 TAAACCCTTAAGCCCTTAAATAC
1 TAAACCC-TAAATCCTAAAACAC
* * * *
71408597 AAAATCCTAAATGCTAAAACTC
1 TAAACCCTAAATCCTAAAACAC
71408619 TAAACC
1 TAAACC
71408625 AAATCATTAA
Statistics
Matches: 112, Mismatches: 38, Indels: 19
0.66 0.22 0.11
Matches are distributed among these distances:
20 3 0.03
21 33 0.29
22 53 0.47
23 18 0.16
24 5 0.04
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (22 bp):
TAAACCCTAAATCCTAAAACAC
Found at i:71408699 original size:58 final size:58
Alignment explanation
Indices: 71408574--71408709 Score: 156
Period size: 58 Copynumber: 2.4 Consensus size: 58
71408564 CTATAGACAC
* * *
71408574 TAAACCCTTAAGCCCTTAAATACAAAATCCTAAATGCTAAAACTCTAAACCAAATCAT
1 TAAACCCTTAAGCCCTTAAATACAAAATCCAAAATGCCAAAACTCTAAACCAAACCAT
*
71408632 TAAACCCTTAAGCCCTTAAATACGAAATCCAAAAT-CCAAAA-TCCTAAATCCTAAAACCA-
1 TAAACCCTTAAGCCCTTAAATACAAAATCCAAAATGCCAAAACT-CTAAA-CC--AAACCAT
*
71408691 TAAA-CCTTAAACCC-TAAAT
1 TAAACCCTTAAGCCCTTAAAT
71408710 CCTAACACAT
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
56 1 0.01
57 15 0.22
58 44 0.64
59 4 0.06
60 5 0.07
ACGTcount: A:0.47, C:0.27, G:0.03, T:0.23
Consensus pattern (58 bp):
TAAACCCTTAAGCCCTTAAATACAAAATCCAAAATGCCAAAACTCTAAACCAAACCAT
Found at i:71408713 original size:7 final size:7
Alignment explanation
Indices: 71408656--71408714 Score: 57
Period size: 7 Copynumber: 8.3 Consensus size: 7
71408646 CTTAAATACG
*
71408656 AAATCCA
1 AAATCCT
*
71408663 AAATCCA
1 AAATCCT
71408670 AAATCCT
1 AAATCCT
71408677 AAATCCT
1 AAATCCT
*
71408684 AAAACCAT
1 AAATCC-T
71408692 AAA-CCTT
1 AAATCC-T
*
71408699 AAACCCT
1 AAATCCT
71408706 AAATCCT
1 AAATCCT
71408713 AA
1 AA
71408715 CACATAAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
7 40 0.87
8 6 0.13
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (7 bp):
AAATCCT
Found at i:71408724 original size:22 final size:22
Alignment explanation
Indices: 71408699--71408770 Score: 108
Period size: 22 Copynumber: 3.3 Consensus size: 22
71408689 CATAAACCTT
* * *
71408699 AAACCCTAAATCCTAACACATA
1 AAACCCAAAATCATAACCCATA
*
71408721 AAACCCAAAATCAAAACCCATA
1 AAACCCAAAATCATAACCCATA
71408743 AAACCCAAAATCATAACCCATA
1 AAACCCAAAATCATAACCCATA
71408765 AAACCC
1 AAACCC
71408771 TAAACTATAG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.54, C:0.33, G:0.00, T:0.12
Consensus pattern (22 bp):
AAACCCAAAATCATAACCCATA
Found at i:71409143 original size:3 final size:3
Alignment explanation
Indices: 71409135--71409172 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
71409125 CATTTTAGTA
71409135 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
71409173 AGAGAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:71409410 original size:116 final size:114
Alignment explanation
Indices: 71409282--71409637 Score: 396
Period size: 115 Copynumber: 3.1 Consensus size: 114
71409272 GCCCGTTTTG
* * *
71409282 TAGCTTTGTTATTAGTGGCGCTTTTAAAAAAATGCCGCAAAAGGTATGTATTACCGACGTTTTTA
1 TAGCCTTGTTATTAGTGGCGCTTTTAAAAAAA-GCCGCAAAAGGTATGTATTACCGGCGTTTTCA
*
71409347 TCTAAAACGCCACAAAACATCTATTAAGAGATTGTAAAACGGCGTCGTTTA
65 -CTAAAACGCCACAAAATATCTATTAAGAGATTGTAAAACGGCGTCGTTTA
* * *
71409398 TAGCCTTGTTATTAGTGGCGCTTTCT-AAAAACGCCGCAAAATGTACGTATTACCGGCGTTTTCA
1 TAGCCTTGTTATTAGTGGCGCTTT-TAAAAAAAGCCGCAAAAGGTATGTATTACCGGCGTTTTCA
* * *
71409462 CCTAAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTA
65 -CTAAAACGCCACAAAA--TATCTATTAAGAGATTGTAAAACGGCGTCGTTTA
* * * ** *
71409515 TAGCCTTGTTATAAGTGGCGC-TTTAATAAACA-CCGCAAAAGGTGTAAATTACCGGTGTTTTCA
1 TAGCCTTGTTATTAGTGGCGCTTTTAA-AAAAAGCCGCAAAAGGTATGTATTACCGGCGTTTTCA
* * * ** *
71409578 CGAGAAAACGCCAC-AAATATCTATTAACAGATTGCAAAAACATCGTCATTTA
65 C--TAAAACGCCACAAAATATCTATTAAGAGATTG-TAAAACGGCGTCGTTTA
71409630 TAGCCTTG
1 TAGCCTTG
71409638 AAACTAGTGG
Statistics
Matches: 203, Mismatches: 29, Indels: 17
0.82 0.12 0.07
Matches are distributed among these distances:
114 15 0.07
115 65 0.32
116 59 0.29
117 64 0.32
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (114 bp):
TAGCCTTGTTATTAGTGGCGCTTTTAAAAAAAGCCGCAAAAGGTATGTATTACCGGCGTTTTCAC
TAAAACGCCACAAAATATCTATTAAGAGATTGTAAAACGGCGTCGTTTA
Found at i:71409519 original size:117 final size:114
Alignment explanation
Indices: 71409282--71409557 Score: 374
Period size: 117 Copynumber: 2.4 Consensus size: 114
71409272 GCCCGTTTTG
* * * *
71409282 TAGCTTTGTTATTAGTGGCGCTTTTAAAAAAATGCCGCAAAAGGTATGTATTACCGACGTTTTTA
1 TAGCCTTGTTATTAGTGGCGCTTTT--AAAAACGCCGCAAAAGGTACGTATTACCGACGTTTTCA
* * *
71409347 TCTAAAACGCCACAAAACATCTATTAAGAGATTGTAAAACGGCGTCGTTTA
64 CCTAAAACGCCAAAAAACATCTATTAAGAGATTGTAAAACGGCATCGTTTA
* *
71409398 TAGCCTTGTTATTAGTGGCGCTTTCTAAAAACGCCGCAAAATGTACGTATTACCGGCGTTTTCAC
1 TAGCCTTGTTATTAGTGGCGCTTT-TAAAAACGCCGCAAAAGGTACGTATTACCGACGTTTTCAC
* *
71409463 CTAAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTA
65 CTAAAACGCCAAAAAA--CATCTATTAAGAGATTGTAAAACGGCATCGTTTA
* *
71409515 TAGCCTTGTTATAAGTGGCGC-TTTAATAAACACCGCAAAAGGT
1 TAGCCTTGTTATTAGTGGCGCTTTTAA-AAACGCCGCAAAAGGT
71409558 GTAAATTACC
Statistics
Matches: 142, Mismatches: 14, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
115 51 0.36
116 39 0.27
117 52 0.37
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (114 bp):
TAGCCTTGTTATTAGTGGCGCTTTTAAAAACGCCGCAAAAGGTACGTATTACCGACGTTTTCACC
TAAAACGCCAAAAAACATCTATTAAGAGATTGTAAAACGGCATCGTTTA
Found at i:71409586 original size:117 final size:116
Alignment explanation
Indices: 71409282--71409590 Score: 317
Period size: 117 Copynumber: 2.6 Consensus size: 116
71409272 GCCCGTTTTG
* * * * ** * *
71409282 TAGCTTTGTTATTAGTGGCGCTTT-TAAAAAAATGCCGCAAAAGGTATGTATTACCGACGTTTTT
1 TAGCCTTGTTATAAGTGGCGCTTTCTAAAAACA--CCGCAAAATGTA-CAATTACCGGCGTTTTC
* * * * *
71409346 ATC-TAAAACGCCACAAAA--CATCTATTAAGAGATTGTAAAACGGCGTCGTTTA
63 A-CAGAAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTA
* * *
71409398 TAGCCTTGTTATTAGTGGCGCTTTCTAAAAACGCCGCAAAATGTACGTATTACCGGCGTTTTCAC
1 TAGCCTTGTTATAAGTGGCGCTTTCTAAAAACACCGCAAAATGTAC-AATTACCGGCGTTTTCAC
**
71409463 CTAAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTA
65 AGAAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTA
*
71409515 TAGCCTTGTTATAAGTGGCGC-TT-TAATAAACACCGCAAAAGGTGTA-AATTACCGGTGTTTTC
1 TAGCCTTGTTATAAGTGGCGCTTTCTAA-AAACACCGCAAAA--TGTACAATTACCGGCGTTTTC
71409577 ACGAGAAAACGCCA
63 AC-AGAAAACGCCA
71409591 CAAATATCTA
Statistics
Matches: 167, Mismatches: 17, Indels: 17
0.83 0.08 0.08
Matches are distributed among these distances:
114 1 0.01
115 43 0.26
116 53 0.32
117 66 0.40
118 4 0.02
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (116 bp):
TAGCCTTGTTATAAGTGGCGCTTTCTAAAAACACCGCAAAATGTACAATTACCGGCGTTTTCACA
GAAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTA
Found at i:71409659 original size:115 final size:111
Alignment explanation
Indices: 71409350--71409659 Score: 325
Period size: 117 Copynumber: 2.7 Consensus size: 111
71409340 GTTTTTATCT
*
71409350 AAAACGCCACAAAACATCTATTAAGAGATTGTAAAACGGCGTCGTTTATAGCCTTGTTATTAGTG
1 AAAACGCCAC-AAATATCTATTAAGAGATTGTAAAACGGCGTCGTTTATAGCCTTGTTA-TAGTG
* * * **
71409415 GCGCTTTCTAAAAACGCCGCAAAATGTACGTATTACCGGCGTTTTCACCT
64 GCGCTTTC-ATAAACACCGCAAAATGTAC-AATTACCGGCGTTTTCACAG
* * *
71409465 AAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTATAGCCTTGTTATAAG
1 AAAACGCC-ACAAA--TATCTATTAAGAGATTGTAAAACGGCGTCGTTTATAGCCTTGTTAT-AG
* *
71409530 TGGCGCTTTAATAAACACCGCAAAAGGTGTA-AATTACCGGTGTTTTCACGAG
62 TGGCGCTTTCATAAACACCGCAAAA--TGTACAATTACCGGCGTTTTCAC-AG
* * ** * **
71409582 AAAACGCCACAAATATCTATTAACAGATTGCAAAAACATCGTCATTTATAGCCTTGAAACTAGTG
1 AAAACGCCACAAATATCTATTAAGAGATTG-TAAAACGGCGTCGTTTATAGCCTTGTTA-TAGTG
*
71409647 GCGTTTTCATAAA
64 GCGCTTTCATAAA
71409660 AAAACGCCAC
Statistics
Matches: 163, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
114 15 0.09
115 47 0.29
116 36 0.22
117 61 0.37
118 4 0.02
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (111 bp):
AAAACGCCACAAATATCTATTAAGAGATTGTAAAACGGCGTCGTTTATAGCCTTGTTATAGTGGC
GCTTTCATAAACACCGCAAAATGTACAATTACCGGCGTTTTCACAG
Found at i:71412046 original size:9 final size:9
Alignment explanation
Indices: 71412028--71412216 Score: 165
Period size: 9 Copynumber: 21.0 Consensus size: 9
71412018 GTTTAAATTT
71412028 CATAACTTA
1 CATAACTTA
*
71412037 CATAATTTA
1 CATAACTTA
71412046 CATAACTTA
1 CATAACTTA
71412055 CATAA--TA
1 CATAACTTA
*
71412062 CATAA-ATA
1 CATAACTTA
* *
71412070 TATATCATATA
1 CATAAC-T-TA
71412081 -ATAACTTA
1 CATAACTTA
*
71412089 TATAACTTA
1 CATAACTTA
71412098 -ATAACTTA
1 CATAACTTA
*
71412106 CATATATCATA
1 CATA-A-CTTA
71412117 TCATAACTTA
1 -CATAACTTA
*
71412127 CATAACTCA
1 CATAACTTA
71412136 CATAACTTA
1 CATAACTTA
71412145 CATAACTTA
1 CATAACTTA
71412154 CATAAC-TA
1 CATAACTTA
71412162 CATAACTTAA
1 CATAACTT-A
* *
71412172 CATACCTCA
1 CATAACTTA
* *
71412181 GAAAACTTA
1 CATAACTTA
* *
71412190 CGTAACTCA
1 CATAACTTA
71412199 CATAACTTA
1 CATAACTTA
71412208 CATAACTTA
1 CATAACTTA
71412217 TTCGTGTAAT
Statistics
Matches: 147, Mismatches: 22, Indels: 22
0.77 0.12 0.12
Matches are distributed among these distances:
7 7 0.05
8 23 0.16
9 92 0.63
10 15 0.10
11 6 0.04
12 4 0.03
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:71412111 original size:21 final size:21
Alignment explanation
Indices: 71412069--71412130 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
71412059 ATACATAAAT
*
71412069 ATATATCATATAATAACTT--
1 ATATATAATATAATAACTTAC
*
71412088 ATATA-ACT-TAATAACTTAC
1 ATATATAATATAATAACTTAC
* *
71412107 ATATATCATATCATAACTTAC
1 ATATATAATATAATAACTTAC
71412128 ATA
1 ATA
71412131 ACTCACATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 9 0.26
18 1 0.03
19 10 0.29
20 1 0.03
21 13 0.38
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.39
Consensus pattern (21 bp):
ATATATAATATAATAACTTAC
Found at i:71412117 original size:38 final size:39
Alignment explanation
Indices: 71412028--71412148 Score: 127
Period size: 38 Copynumber: 3.3 Consensus size: 39
71412018 GTTTAAATTT
71412028 CATAACTTACATA-AT--T-TACATAACTTACATAA-T-A
1 CATAACTTACATATATCATATA-ATAACTTACATAACTCA
* * *
71412062 CATAA---ATATATATCATATAATAACTTATATAACTTA
1 CATAACTTACATATATCATATAATAACTTACATAACTCA
*
71412098 -ATAACTTACATATATCATATCATAACTTACATAACTCA
1 CATAACTTACATATATCATATAATAACTTACATAACTCA
71412136 CATAACTTACATA
1 CATAACTTACATA
71412149 ACTTACATAA
Statistics
Matches: 71, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
31 4 0.06
32 2 0.03
34 18 0.25
35 7 0.10
36 1 0.01
38 27 0.38
39 12 0.17
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (39 bp):
CATAACTTACATATATCATATAATAACTTACATAACTCA
Found at i:71414630 original size:27 final size:27
Alignment explanation
Indices: 71414600--71414654 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
71414590 AGAAAGGTGC
71414600 TAATTTATTTGTAAAGTATTCATTCAT
1 TAATTTATTTGTAAAGTATTCATTCAT
71414627 TAATTTATTTGTAAAGTATTCATTCAT
1 TAATTTATTTGTAAAGTATTCATTCAT
71414654 T
1 T
71414655 CACCTCTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (27 bp):
TAATTTATTTGTAAAGTATTCATTCAT
Found at i:71417237 original size:13 final size:14
Alignment explanation
Indices: 71417221--71417249 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
71417211 TTTTAAATAT
71417221 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
71417234 TTATAATGGTTTAA
1 TTATAATGGTTTAA
71417248 TT
1 TT
71417250 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:71420980 original size:13 final size:13
Alignment explanation
Indices: 71420962--71420991 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
71420952 CAATCAGCTA
71420962 AATTCAGAAAAAC
1 AATTCAGAAAAAC
71420975 AATTCAGAAAAAC
1 AATTCAGAAAAAC
71420988 AATT
1 AATT
71420992 ACATGACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (13 bp):
AATTCAGAAAAAC
Found at i:71421309 original size:21 final size:21
Alignment explanation
Indices: 71421283--71421329 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
71421273 TTTTGTACAC
71421283 CTCTTCTTAGACTGCCTACGA
1 CTCTTCTTAGACTGCCTACGA
* *
71421304 CTCTTCTTAGACTGCCTCCGC
1 CTCTTCTTAGACTGCCTACGA
71421325 CTCTT
1 CTCTT
71421330 TCCCATTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.13, C:0.38, G:0.13, T:0.36
Consensus pattern (21 bp):
CTCTTCTTAGACTGCCTACGA
Found at i:71435174 original size:38 final size:38
Alignment explanation
Indices: 71435123--71435195 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
71435113 AAGTCAACCT
* *
71435123 AACTCGTACAAAGTGAAAATTTTCTATAGAAATTCTCA
1 AACTCGTACAAAGTAAAAATTCTCTATAGAAATTCTCA
*
71435161 AACTCGTGCAAAGTAAAAATTCTCTATAGAAATTC
1 AACTCGTACAAAGTAAAAATTCTCTATAGAAATTC
71435196 CCATAAGGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.30
Consensus pattern (38 bp):
AACTCGTACAAAGTAAAAATTCTCTATAGAAATTCTCA
Found at i:71436265 original size:34 final size:35
Alignment explanation
Indices: 71436225--71436304 Score: 130
Period size: 34 Copynumber: 2.4 Consensus size: 35
71436215 ATATGTTCAT
71436225 ACAACCAAT-ATGCCCAAAGGGCATCTCAATCACA
1 ACAACCAATCATGCCCAAAGGGCATCTCAATCACA
71436259 ACAACC-ATCATGCCCAAAGGGCATCTCAATCACA
1 ACAACCAATCATGCCCAAAGGGCATCTCAATCACA
*
71436293 AAAACCAA-CATG
1 ACAACCAATCATG
71436305 TACTACCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
33 2 0.05
34 40 0.93
35 1 0.02
ACGTcount: A:0.42, C:0.33, G:0.11, T:0.14
Consensus pattern (35 bp):
ACAACCAATCATGCCCAAAGGGCATCTCAATCACA
Found at i:71436964 original size:15 final size:16
Alignment explanation
Indices: 71436935--71436964 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
71436925 CAAACATGCT
71436935 TTAACACATTATCAAA
1 TTAACACATTATCAAA
71436951 TTAACACA-TATCAA
1 TTAACACATTATCAA
71436965 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:71452608 original size:45 final size:45
Alignment explanation
Indices: 71452519--71452606 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
71452509 CCCTTGGCCG
*
71452519 AATTTCTATTTAAATATTAAAATAATTAGGAGTTGTTTTATTTTA
1 AATTTCCATTTAAATATTAAAATAATTAGGAGTTGTTTTATTTTA
71452564 AATTTCCATTTAAATATTAAAATAATTAGGAGTT-TTTTATTTT
1 AATTTCCATTTAAATATTAAAATAATTAGGAGTTGTTTTATTTT
71452607 TAGTTTTCTA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 9 0.21
45 33 0.79
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (45 bp):
AATTTCCATTTAAATATTAAAATAATTAGGAGTTGTTTTATTTTA
Found at i:71454500 original size:22 final size:22
Alignment explanation
Indices: 71454451--71454505 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
71454441 CCTGTTTTTA
* * **
71454451 ATTAAAATTAAAATTATTTTTT
1 ATTAAAATTAAAACTAATAGTT
*
71454473 AATAAAATTAAAACTAATAGTT
1 ATTAAAATTAAAACTAATAGTT
71454495 ATTAAAATTAA
1 ATTAAAATTAA
71454506 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTAAAATTAAAACTAATAGTT
Found at i:71454518 original size:16 final size:16
Alignment explanation
Indices: 71454481--71454520 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
71454471 TTAATAAAAT
* *
71454481 TAAAACTAATAGTTAT
1 TAAAATTAATAGTTAG
*
71454497 TAAAATTAATTGTTAG
1 TAAAATTAATAGTTAG
71454513 TAAAATTA
1 TAAAATTA
71454521 TCAAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (16 bp):
TAAAATTAATAGTTAG
Found at i:71454559 original size:68 final size:66
Alignment explanation
Indices: 71454509--71454714 Score: 333
Period size: 68 Copynumber: 3.1 Consensus size: 66
71454499 AAATTAATTG
*
71454509 TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
1 TTAGTAAATTTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAATAAAAT-TAACATTT
71454573 GA
65 GA
71454575 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATTTAACATT
1 TTAGTAAATTTATCAAATTATTAATTG-ATTAATTGTATTAATTGTTGTAATAAAA-TTAACATT
71454640 TGA
64 TGA
* *
71454643 TTAGTAAATTTATCAAATTATTGATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTG-ATTAATTGTATTAATTGTTGTAATAAAAT-TAACATT
71454708 TGA
64 TGA
71454711 TTAG
1 TTAG
71454715 GAAAACAAAC
Statistics
Matches: 133, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
66 26 0.20
67 1 0.01
68 105 0.79
69 1 0.01
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (66 bp):
TTAGTAAATTTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAATAAAATTAACATTTG
A
Found at i:71454626 original size:9 final size:9
Alignment explanation
Indices: 71454593--71454620 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
71454583 TTTATCAAAT
71454593 TATTAATTG
1 TATTAATTG
71454602 TATTAATTG
1 TATTAATTG
71454611 TATTAATTG
1 TATTAATTG
71454620 T
1 T
71454621 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:71456724 original size:90 final size:90
Alignment explanation
Indices: 71456609--71456780 Score: 247
Period size: 90 Copynumber: 1.9 Consensus size: 90
71456599 TTTTCTTTTT
* *
71456609 TTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGCACCAAAAAGGCCCTCAAAATGCACC
1 TTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGAACCAAAAAGACCCTCAAAATGCACC
71456674 AAAAAAAGCAATTAAGCCTCTGCTTA
66 -AAAAAAGCAATTAAGCCTCTGCTTA
* * * ****
71456700 TTTTTTT-CACTCAATTGGGTACTTGAACTTTCAAAATGAATCAAAAAGACCCTCAAAATTTTTC
1 TTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGAACCAAAAAGACCCTCAAAATGCACC
71456764 AAAAAAGCAATTAAGCC
66 AAAAAAGCAATTAAGCC
71456781 CCTGGTCTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
89 17 0.24
90 48 0.67
91 7 0.10
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (90 bp):
TTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGAACCAAAAAGACCCTCAAAATGCACC
AAAAAAGCAATTAAGCCTCTGCTTA
Found at i:71456817 original size:10 final size:9
Alignment explanation
Indices: 71456804--71456918 Score: 83
Period size: 9 Copynumber: 12.4 Consensus size: 9
71456794 AAAATTAGAA
71456804 AAAAAGTTAT
1 AAAAA-TTAT
71456814 AAAAATTATT
1 AAAAATTA-T
**
71456824 AAATTTTAAT
1 AAAAATT-AT
71456834 AAAAA-TAT
1 AAAAATTAT
71456842 AAAAAATTAT
1 -AAAAATTAT
71456852 --AAATTAT
1 AAAAATTAT
*
71456859 AAAAATTGT
1 AAAAATTAT
* *
71456868 AAAAAATAA
1 AAAAATTAT
*
71456877 AAAAATTGT
1 AAAAATTAT
*
71456886 AAAATTTTAT
1 AAAA-ATTAT
*
71456896 AAAAATCAT
1 AAAAATTAT
71456905 AAAAAATTAT
1 -AAAAATTAT
71456915 AAAA
1 AAAA
71456919 TGTATCAAAA
Statistics
Matches: 81, Mismatches: 16, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
7 7 0.09
8 2 0.02
9 38 0.47
10 33 0.41
11 1 0.01
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:71456870 original size:26 final size:28
Alignment explanation
Indices: 71456814--71456874 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 28
71456804 AAAAAGTTAT
71456814 AAAAATTATTAAATTTTAATAAAAATATA
1 AAAAATTATTAAA-TTTAATAAAAATATA
*
71456843 AAAAATTA-TAAA-TT-ATAAAAATTGTA
1 AAAAATTATTAAATTTAATAAAAA-TATA
71456869 AAAAAT
1 AAAAAT
71456875 AAAAAAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 7 0.23
26 11 0.37
28 4 0.13
29 8 0.27
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (28 bp):
AAAAATTATTAAATTTAATAAAAATATA
Found at i:71457058 original size:18 final size:18
Alignment explanation
Indices: 71457014--71457094 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 18
71457004 TTTTATAGTT
*
71457014 TTTTTTACGATTTTTATAA
1 TTTTTTACAATTTTTAT-A
**
71457033 AATTTTACAACTTTTTAT-
1 TTTTTTACAA-TTTTTATA
71457051 TTTTTTACAATTTTTATA
1 TTTTTTACAATTTTTATA
71457069 -TTTTT-CTAATTTTTAATAA
1 TTTTTTAC-AATTTTT-AT-A
71457088 TTTTTTA
1 TTTTTTA
71457095 ATATTTGAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
16 1 0.02
17 19 0.38
18 10 0.20
19 8 0.16
20 12 0.24
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTTTTACAATTTTTATA
Found at i:71457096 original size:8 final size:8
Alignment explanation
Indices: 71457044--71457111 Score: 55
Period size: 8 Copynumber: 7.9 Consensus size: 8
71457034 ATTTTACAAC
*
71457044 TTTTTATT
1 TTTTTAAT
*
71457052 TTTTTACAA
1 TTTTTA-AT
71457061 TTTTTATAT
1 TTTTTA-AT
71457070 TTTTCTAAT
1 TTTT-TAAT
71457079 TTTTAATAAT
1 TTTT--TAAT
71457089 TTTTTAAT
1 TTTTTAAT
* *
71457097 ATTTGAAT
1 TTTTTAAT
71457105 TTTTTAA
1 TTTTTAA
71457112 ATTAAAATTT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
8 21 0.44
9 17 0.35
10 10 0.21
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (8 bp):
TTTTTAAT
Found at i:71457294 original size:88 final size:88
Alignment explanation
Indices: 71457188--71457380 Score: 257
Period size: 89 Copynumber: 2.2 Consensus size: 88
71457178 TAATAAAATC
* * * * *
71457188 AGGGACTTAATTACTTTTTTTGGAAAA-TTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAG
1 AGGGACTTAATTACTTTTTTTGGAAAAGATTTGAGGGCCTTTTTGATACATTTTAAAAGTTCAAA
* * *
71457252 TATCCAATTGAGTGCAAAAAAAG
66 TACCCAAATGAATGCAAAAAAAG
* * *
71457275 TAGGGGCTTAATTACTTTTTTTTGAAAAGATTTGAGGGCCTTTTTGATATATTTTAAAAGTTCAA
1 -AGGGACTTAATTACTTTTTTTGGAAAAGATTTGAGGGCCTTTTTGATACATTTTAAAAGTTCAA
71457340 ATACCCAAATGAATGCAAAAAAAG
65 ATACCCAAATGAATGCAAAAAAAG
71457364 A--GACTTAATTACTTTTT
1 AGGGACTTAATTACTTTTT
71457381 CTTTTTTGAA
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
86 15 0.16
88 26 0.28
89 51 0.55
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (88 bp):
AGGGACTTAATTACTTTTTTTGGAAAAGATTTGAGGGCCTTTTTGATACATTTTAAAAGTTCAAA
TACCCAAATGAATGCAAAAAAAG
Found at i:71457407 original size:89 final size:88
Alignment explanation
Indices: 71457190--71457408 Score: 248
Period size: 89 Copynumber: 2.5 Consensus size: 88
71457180 ATAAAATCAG
* * * * * *
71457190 GGACTTAATTAC-TTTTTTTGGAAAATTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTA
1 GGACTTAATTACTTTTTTTTGAAAAAATTTGAGGGACTTTTTGATACATTTTAAAAGTTCAAATA
* * *
71457254 TCCAATTGAGTGCAAAAAAAGTA
66 CCCAAATGAATGCAAAAAAAGTA
* * * *
71457277 GGGGCTTAATTACTTTTTTTTGAAAAGATTTGAGGGCCTTTTTGATATATTTTAAAAGTTCAAAT
1 -GGACTTAATTACTTTTTTTTGAAAAAATTTGAGGGACTTTTTGATACATTTTAAAAGTTCAAAT
71457342 ACCCAAATGAATGCAAAAAAAG-A
65 ACCCAAATGAATGCAAAAAAAGTA
71457365 -GACTTAATTACTTTTTCTTTTTTGAAAAAATTTGA-GGACTTTTT
1 GGACTTAATTAC---TT-TTTTTTGAAAAAATTTGAGGGACTTTTT
71457409 ACATCTTTAA
Statistics
Matches: 111, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
86 10 0.09
88 12 0.11
89 72 0.65
90 17 0.15
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (88 bp):
GGACTTAATTACTTTTTTTTGAAAAAATTTGAGGGACTTTTTGATACATTTTAAAAGTTCAAATA
CCCAAATGAATGCAAAAAAAGTA
Found at i:71458849 original size:16 final size:16
Alignment explanation
Indices: 71458828--71458860 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
71458818 TTCGCTGTAT
71458828 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
71458844 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
71458860 T
1 T
71458861 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:71459072 original size:16 final size:16
Alignment explanation
Indices: 71459035--71459076 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
71459025 TTAATCATAT
*
71459035 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
71459051 TT-AAATATATTATAA
1 TTAAAATATATTATAA
71459066 TTAAAATATAT
1 TTAAAATATAT
71459077 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:71459083 original size:14 final size:15
Alignment explanation
Indices: 71459044--71459085 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
71459034 TTTAAACATA
*
71459044 ATTATTATTAAATAT
1 ATTATAATTAAATAT
71459059 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
71459073 A-TATAATTTAATA
1 ATTATAATTAAATA
71459086 AAATTNNNNN
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:71461970 original size:15 final size:15
Alignment explanation
Indices: 71461950--71461985 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
71461940 GGTATATGTA
71461950 TAATTGACCTAAAAT
1 TAATTGACCTAAAAT
71461965 TAATTGACCTAAAAT
1 TAATTGACCTAAAAT
71461980 TAATTG
1 TAATTG
71461986 TTGTTATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.36
Consensus pattern (15 bp):
TAATTGACCTAAAAT
Found at i:71462207 original size:6 final size:6
Alignment explanation
Indices: 71462196--71462221 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
71462186 TAGTTTGAAC
71462196 ATTTAA ATTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA AT
71462222 ATAATTTCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:71462682 original size:13 final size:13
Alignment explanation
Indices: 71462664--71462688 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71462654 ATCAAATTTG
71462664 TATGTACTCTTTA
1 TATGTACTCTTTA
71462677 TATGTACTCTTT
1 TATGTACTCTTT
71462689 CACTAATAAA
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:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
TATGTACTCTTTA
Found at i:71463210 original size:29 final size:29
Alignment explanation
Indices: 71463177--71463244 Score: 120
Period size: 29 Copynumber: 2.3 Consensus size: 29
71463167 AACAAATGCA
71463177 ACAATTTCCAGTTTCATTGAAAAC-AGCAG
1 ACAATTTCCAGTTTCATTGAAAACTA-CAG
71463206 ACAATTTCCAGTTTCATTGAAAACTACAG
1 ACAATTTCCAGTTTCATTGAAAACTACAG
71463235 ACAATTTCCA
1 ACAATTTCCA
71463245 TTGCAACAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 37 0.97
30 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.29
Consensus pattern (29 bp):
ACAATTTCCAGTTTCATTGAAAACTACAG
Found at i:71464352 original size:15 final size:15
Alignment explanation
Indices: 71464332--71464360 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
71464322 GCAATACAAA
71464332 CATACAAAACAGAAC
1 CATACAAAACAGAAC
71464347 CATACAAAACAGAA
1 CATACAAAACAGAA
71464361 ACCACAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.24, G:0.07, T:0.07
Consensus pattern (15 bp):
CATACAAAACAGAAC
Found at i:71468710 original size:21 final size:21
Alignment explanation
Indices: 71468685--71468725 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
71468675 GGACTTGAGA
71468685 AATTTTAGATTAGGGATTTTC
1 AATTTTAGATTAGGGATTTTC
* *
71468706 AATTTTGGGTTAGGGATTTT
1 AATTTTAGATTAGGGATTTT
71468726 TGAGTCTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (21 bp):
AATTTTAGATTAGGGATTTTC
Found at i:71470735 original size:39 final size:39
Alignment explanation
Indices: 71470618--71470957 Score: 485
Period size: 39 Copynumber: 8.6 Consensus size: 39
71470608 GCTCCTCGTT
* *
71470618 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
71470658 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
71470698 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
71470737 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
71470776 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
71470815 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
71470854 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
71470893 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
71470934 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
71470958 CATCATTCAA
Statistics
Matches: 282, Mismatches: 11, Indels: 15
0.92 0.04 0.05
Matches are distributed among these distances:
39 210 0.74
40 61 0.22
41 11 0.04
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:71478851 original size:79 final size:78
Alignment explanation
Indices: 71478749--71478971 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
71478739 GCTCCTCGTT
* *
71478749 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
71478814 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
71478829 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
71478892 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
71478907 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
71478970 GA
63 GA
71478972 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:71478866 original size:39 final size:40
Alignment explanation
Indices: 71478749--71478971 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
71478739 GCTCCTCGTT
* *
71478749 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
71478789 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
71478829 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
71478868 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
71478907 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
71478948 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
71478972 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:71481672 original size:24 final size:23
Alignment explanation
Indices: 71481625--71481667 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
71481615 ACATATATTC
71481625 TTTTTTAAAGTATTTGTTTTTGT
1 TTTTTTAAAGTATTTGTTTTTGT
*
71481648 TTTTTTATAGTATTT-TTTTT
1 TTTTTTAAAGTATTTGTTTTT
71481668 ATGTTATTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.74
Consensus pattern (23 bp):
TTTTTTAAAGTATTTGTTTTTGT
Found at i:71496468 original size:3 final size:3
Alignment explanation
Indices: 71496460--71496484 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
71496450 TGCTTTTAAA
71496460 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
71496485 GAGAGTGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:71498361 original size:20 final size:17
Alignment explanation
Indices: 71498327--71498365 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 17
71498317 ATTCTGTAGT
71498327 TAAAAAAAAAAAGAGAG
1 TAAAAAAAAAAAGAGAG
71498344 TAAATAAAACAAATAGAGAG
1 TAAA-AAAA-AAA-AGAGAG
71498364 TA
1 TA
71498366 TAGAAGAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 4 0.21
19 3 0.16
20 8 0.42
ACGTcount: A:0.69, C:0.03, G:0.15, T:0.13
Consensus pattern (17 bp):
TAAAAAAAAAAAGAGAG
Found at i:71498661 original size:47 final size:47
Alignment explanation
Indices: 71498592--71498688 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
71498582 ACACTTCTAA
71498592 GTCTATCATGTTGCTCCCTATGATTTAAATGATGTTTGTATAGACTT
1 GTCTATCATGTTGCTCCCTATGATTTAAATGATGTTTGTATAGACTT
* *
71498639 GTCTATCATTTTGCTCCCTATGATTTAAATGATTTTTGTATAGACTT
1 GTCTATCATGTTGCTCCCTATGATTTAAATGATGTTTGTATAGACTT
71498686 GTC
1 GTC
71498689 AACTAGTCAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (47 bp):
GTCTATCATGTTGCTCCCTATGATTTAAATGATGTTTGTATAGACTT
Found at i:71512291 original size:17 final size:18
Alignment explanation
Indices: 71512261--71512294 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
71512251 TTAAATATAT
71512261 TTTTATCTTTTGGGCCCC
1 TTTTATCTTTTGGGCCCC
71512279 TTTTATC-TTTGGGCCC
1 TTTTATCTTTTGGGCCC
71512295 TGGGCTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.06, C:0.26, G:0.18, T:0.50
Consensus pattern (18 bp):
TTTTATCTTTTGGGCCCC
Found at i:71514495 original size:13 final size:13
Alignment explanation
Indices: 71514458--71514498 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
71514448 TTTTGCTTTA
71514458 CTGCTTTGCTCTG
1 CTGCTTTGCTCTG
71514471 CT--TTGTGCCTCTG
1 CTGCTT-TG-CTCTG
71514484 CTGCTTTGCTCTG
1 CTGCTTTGCTCTG
71514497 CT
1 CT
71514499 TTGCTTTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
11 2 0.08
12 2 0.08
13 16 0.67
14 2 0.08
15 2 0.08
ACGTcount: A:0.00, C:0.32, G:0.22, T:0.46
Consensus pattern (13 bp):
CTGCTTTGCTCTG
Found at i:71514673 original size:12 final size:12
Alignment explanation
Indices: 71514656--71514680 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71514646 TATTTTAGAG
71514656 TTTACTAATTGC
1 TTTACTAATTGC
71514668 TTTACTAATTGC
1 TTTACTAATTGC
71514680 T
1 T
71514681 AGATCCCCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTACTAATTGC
Found at i:71518043 original size:72 final size:72
Alignment explanation
Indices: 71517943--71518114 Score: 242
Period size: 72 Copynumber: 2.4 Consensus size: 72
71517933 AAAAACAATG
* * *
71517943 CTAAA-CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTT
1 CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGCTTTTTAGATATTGAATTTATGTTCTACTT
71518007 ATTTAT-
66 ATTTATA
* * * *
71518013 GTGTAATCTAGTTTTATCAATGGTTGTTTATGTTTTCTTTTTAGATATTGAATTTATGTTCTACT
1 CT-AAATCTAGTTTTATCAATAGTTGTTTATGTTTGCTTTTTAGATATTGAATTTATGTTCTACT
71518078 TATTTATA
65 TATTTATA
*
71518086 CTAAAT-TAATTTTATCAATAGTTGTTTAT
1 CTAAATCTAGTTTTATCAATAGTTGTTTAT
71518115 ATATGATTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
70 1 0.01
71 23 0.26
72 63 0.72
73 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.55
Consensus pattern (72 bp):
CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGCTTTTTAGATATTGAATTTATGTTCTACTT
ATTTATA
Done.