Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
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: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 22 of 66
Found at i:7327322 original size:40 final size:40
Alignment explanation
Indices: 7327264--7327342 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
7327254 TTATGAAAAA
*
7327264 CACCAATCGTGGCGAGGTTGAAAACCCCACTAAGGTGAAT
1 CACCAATCGTGGCAAGGTTGAAAACCCCACTAAGGTGAAT
*
7327304 CACCAATCTTGGCAAGGTTGAAAACCCCACTAAGGTGAA
1 CACCAATCGTGGCAAGGTTGAAAACCCCACTAAGGTGAA
7327343 AAATAGCCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (40 bp):
CACCAATCGTGGCAAGGTTGAAAACCCCACTAAGGTGAAT
Found at i:7327681 original size:30 final size:30
Alignment explanation
Indices: 7327650--7327705 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
7327640 AAAAGTATTA
*
7327650 AAATAAAA-ATAAGAAAA-GAATCCTAATTT
1 AAATAAAATA-AAGAAAATAAATCCTAATTT
7327679 AAATAAAATAAAGAAAATAAATCCTAA
1 AAATAAAATAAAGAAAATAAATCCTAA
7327706 ATCAACTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.21
Consensus pattern (30 bp):
AAATAAAATAAAGAAAATAAATCCTAATTT
Found at i:7336487 original size:13 final size:13
Alignment explanation
Indices: 7336469--7336496 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7336459 TAAGGTGGCC
7336469 TAGTGCAAAGATG
1 TAGTGCAAAGATG
7336482 TAGTGCAAAGATG
1 TAGTGCAAAGATG
7336495 TA
1 TA
7336497 CATCCAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.29, T:0.25
Consensus pattern (13 bp):
TAGTGCAAAGATG
Found at i:7338995 original size:22 final size:23
Alignment explanation
Indices: 7338970--7339019 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
7338960 AAGAAAAGAA
7338970 AAAAAAATTTAAA-ATAAAAAAT
1 AAAAAAATTTAAATATAAAAAAT
**
7338992 -AAAAAATTTAAATATAAATTAT
1 AAAAAAATTTAAATATAAAAAAT
7339014 AAAAAA
1 AAAAAA
7339020 TAATATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 12 0.50
22 7 0.29
23 5 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (23 bp):
AAAAAAATTTAAATATAAAAAAT
Found at i:7338997 original size:21 final size:22
Alignment explanation
Indices: 7338971--7339020 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
7338961 AGAAAAGAAA
7338971 AAAAAATTTAAA-ATAAAAAAT
1 AAAAAATTTAAATATAAAAAAT
**
7338992 AAAAAATTTAAATATAAATTAT
1 AAAAAATTTAAATATAAAAAAT
7339014 AAAAAAT
1 AAAAAAT
7339021 AATATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAAAATTTAAATATAAAAAAT
Found at i:7339004 original size:13 final size:13
Alignment explanation
Indices: 7338988--7339072 Score: 50
Period size: 13 Copynumber: 6.4 Consensus size: 13
7338978 TTAAAATAAA
7338988 AAATAAAAAATTT
1 AAATAAAAAATTT
*
7339001 AAAT-ATAAATTAT
1 AAATAAAAAATT-T
7339014 AAA-AAATAATATTTT
1 AAATAAA-AA-A-TTT
*
7339029 AAATTTAAAAA-TT
1 AAA-TAAAAAATTT
*
7339042 AAATTAAAAATTT
1 AAATAAAAAATTT
* *
7339055 ATATATAAAATTT
1 AAATAAAAAATTT
*
7339068 TAATA
1 AAATA
7339073 TTTTAAAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
12 13 0.23
13 29 0.52
14 2 0.04
15 6 0.11
16 4 0.07
17 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AAATAAAAAATTT
Found at i:7339040 original size:20 final size:19
Alignment explanation
Indices: 7339015--7339085 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 19
7339005 ATAAATTATA
7339015 AAAAATAATATTTTAAATTT
1 AAAAATAA-ATTTTAAATTT
**
7339035 AAAAATTAAATTAAAAATTT
1 AAAAA-TAAATTTTAAATTT
* *
7339055 ATATATAAAATTTTAATATTTT
1 AAAAAT-AAATTTTAA-A-TTT
7339077 AAAAATAAA
1 AAAAATAAA
7339086 GAATTAAGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
19 1 0.03
20 24 0.62
21 7 0.18
22 7 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAATAAATTTTAAATTT
Found at i:7339151 original size:26 final size:27
Alignment explanation
Indices: 7339122--7339172 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
7339112 CTTTAATTTG
7339122 TTAATATTTT-AAAAA-AATATAAATTA
1 TTAATATTTTGAAAAATAATA-AAATTA
7339148 TTAATATTTTGAAAAATAATAAAAT
1 TTAATATTTTGAAAAATAATAAAAT
7339173 AAAAATAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 10 0.43
27 9 0.39
28 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (27 bp):
TTAATATTTTGAAAAATAATAAAATTA
Found at i:7339179 original size:26 final size:26
Alignment explanation
Indices: 7339124--7339179 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
7339114 TTAATTTGTT
**
7339124 AATATTTTAAAAAAATATAAATTATT
1 AATATTTTAAAAAAATATAAATTAAA
7339150 AATATTTTGAAAAATAATA-AAA-TAAA
1 AATATTTT-AAAAA-AATATAAATTAAA
7339176 AATA
1 AATA
7339180 ACTTATCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 14 0.54
27 8 0.31
28 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (26 bp):
AATATTTTAAAAAAATATAAATTAAA
Found at i:7339252 original size:23 final size:21
Alignment explanation
Indices: 7339226--7339268 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7339216 ATATTTTTAA
7339226 TAAATTATAAAAAATAAATATTT
1 TAAATTA-AAAAAA-AAATATTT
*
7339249 TAAATTAAAAATAAAATATT
1 TAAATTAAAAAAAAAATATT
7339269 ATAATAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 5 0.26
23 7 0.37
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAATTAAAAAAAAAATATTT
Found at i:7339612 original size:150 final size:150
Alignment explanation
Indices: 7339341--7339642 Score: 478
Period size: 150 Copynumber: 2.0 Consensus size: 150
7339331 CCAATCAAAC
* **
7339341 ATTGGAATGAGTCATAATAGCAATTCCTGTCTTATGCCATTTTATAAACTACTAGTCCTTGAGCA
1 ATTGGAATGAGTCATAACAGCAATTCCTGTCTTATGCCATTTTATAAACTACTAGTCCTCAAGCA
7339406 AAACATAAACTAAAATGAAATAACATAAATAAAGAAAACAACTTAATTAGAAATAAATTGCACCA
66 AAACATAAACTAAAATGAAATAACATAAATAAAGAAAACAACTTAATTAGAAATAAATTGCACCA
7339471 ACTCAATAATCACCTTTAAT
131 ACTCAATAATCACCTTTAAT
* * * * * * *
7339491 ATTGGAATGAGTCATAACGGTAATTCTTGTCTTATTCCATTTTATGAACTGCTAGTTCTCAAGCA
1 ATTGGAATGAGTCATAACAGCAATTCCTGTCTTATGCCATTTTATAAACTACTAGTCCTCAAGCA
* * *
7339556 AAATATAAACTAAAATGAAATAGCATAAATTAAGAAAACAACTTAATTAGAAATAAATTGCACCA
66 AAACATAAACTAAAATGAAATAACATAAATAAAGAAAACAACTTAATTAGAAATAAATTGCACCA
*
7339621 ACTCAATACTCACCTTTAAT
131 ACTCAATAATCACCTTTAAT
7339641 AT
1 AT
7339643 CCTCATAAGT
Statistics
Matches: 138, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
150 138 1.00
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (150 bp):
ATTGGAATGAGTCATAACAGCAATTCCTGTCTTATGCCATTTTATAAACTACTAGTCCTCAAGCA
AAACATAAACTAAAATGAAATAACATAAATAAAGAAAACAACTTAATTAGAAATAAATTGCACCA
ACTCAATAATCACCTTTAAT
Found at i:7363392 original size:37 final size:37
Alignment explanation
Indices: 7363342--7363460 Score: 193
Period size: 37 Copynumber: 3.2 Consensus size: 37
7363332 AATGCAATAT
7363342 CATCATCATGTGTGCACTACCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTACCTACTCGCACACTTCAA
* * *
7363379 CATCATCATGTGTGCACTTCCTACTCGCACACTTTAT
1 CATCATCATGTGTGCACTACCTACTCGCACACTTCAA
* *
7363416 CATCTTCATGTGTGCACTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTACCTACTCGCACACTTCAA
7363453 CATCATCA
1 CATCATCA
7363461 CACAACAATA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.24, C:0.35, G:0.10, T:0.30
Consensus pattern (37 bp):
CATCATCATGTGTGCACTACCTACTCGCACACTTCAA
Found at i:7364482 original size:471 final size:471
Alignment explanation
Indices: 7363600--7364547 Score: 1808
Period size: 471 Copynumber: 2.0 Consensus size: 471
7363590 TGTTCCCTAG
*
7363600 CACACATTTTTAAAGAAAAGTTGGATAAAATCATTTAAATGTTCATTCAAATACATTATATTTCC
1 CACACATTTTTAAAAAAAAGTTGGATAAAATCATTTAAATGTTCATTCAAATACATTATATTTCC
7363665 TAAAGAAATTTTGAAATGCAAGTTCACTCACCGGTCTTGTTGATTCTTTTGCTTGACTTTAACCT
66 TAAAGAAATTTTGAAATGCAAGTTCACTCACCGGTCTTGTTGATTCTTTTGCTTGACTTTAACCT
7363730 CAACTAATACTCCAAATGGACATGTGAGGCCTTGTTGGAACCTATACACACACAACATCACAACC
131 CAACTAATACTCCAAATGGACATGTGAGGCCTTGTTGGAACCTATACACACACAACATCACAACC
*
7363795 AACCCAAATTGGCATTAATATAATCCAAAAGCTCTTTCCTAATCAAGTTCCACTAGTTATTCCTA
196 AACCAAAATTGGCATTAATATAATCCAAAAGCTCTTTCCTAATCAAGTTCCACTAGTTATTCCTA
7363860 ACTAGCTTCCAATTGCCATTAAATGGCTAGTTATTCACACTACTCTAGTCACCCTAAGAGTGAAT
261 ACTAGCTTCCAATTGCCATTAAATGGCTAGTTATTCACACTACTCTAGTCACCCTAAGAGTGAAT
7363925 AAACAACCTCAATGATAAAACACTCACAAACCCCATTGTTAGCCATTATCAACAACTAAAGAAAT
326 AAACAACCTCAATGATAAAACACTCACAAACCCCATTGTTAGCCATTATCAACAACTAAAGAAAT
7363990 TTAACCCTAACTTATACTCACCTTGATGGTCTTTGTAGTTGAATTTTCTTTCAAAATTCTTCAAG
391 TTAACCCTAACTTATACTCACCTTGATGGTCTTTGTAGTTGAATTTTCTTTCAAAATTCTTCAAG
7364055 CTAACAAGGGAAATCA
456 CTAACAAGGGAAATCA
7364071 CACACATTTTTAAAAAAAAGTTGGATAAAATCATTTAAATGTTCATTCAAATACATTATATTTCC
1 CACACATTTTTAAAAAAAAGTTGGATAAAATCATTTAAATGTTCATTCAAATACATTATATTTCC
7364136 TAAAGAAATTTTGAAATGCAAGTTCACTCACCGGTCTTGTTGATTCTTTTGCTTGACTTTAACCT
66 TAAAGAAATTTTGAAATGCAAGTTCACTCACCGGTCTTGTTGATTCTTTTGCTTGACTTTAACCT
7364201 CAACTAATACTCCAAATGGACATGTGAGGCCTTGTTGGAACCTATACACACACAACATCACAACC
131 CAACTAATACTCCAAATGGACATGTGAGGCCTTGTTGGAACCTATACACACACAACATCACAACC
7364266 AACCAAAATTGGCATTAATATAATCCAAAAGCTCTTTCCTAATCAAGTTCCACTAGTTATTCCTA
196 AACCAAAATTGGCATTAATATAATCCAAAAGCTCTTTCCTAATCAAGTTCCACTAGTTATTCCTA
* * * *
7364331 ACTAGCTTTCAATTGCCATTAAATGGCTAGTTATTCACACTACTTTGGTCACCTTAAGAGTGAAT
261 ACTAGCTTCCAATTGCCATTAAATGGCTAGTTATTCACACTACTCTAGTCACCCTAAGAGTGAAT
**
7364396 AAACAACCTTC-ATGATAAATTACTCACAAACCCCATTGTTAGCCATTATCAACAACTAAAGAAA
326 AAACAACC-TCAATGATAAAACACTCACAAACCCCATTGTTAGCCATTATCAACAACTAAAGAAA
7364460 TTTAACCCTAACTTATACTCACCTTGATGGTCTTTGTAGTTGAATTTTCTTTCAAAATTCTTCAA
390 TTTAACCCTAACTTATACTCACCTTGATGGTCTTTGTAGTTGAATTTTCTTTCAAAATTCTTCAA
7364525 GCTAACAAGGGAAATCA
455 GCTAACAAGGGAAATCA
7364542 CACACA
1 CACACA
7364548 CTCTCTCTAC
Statistics
Matches: 468, Mismatches: 8, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
471 466 1.00
472 2 0.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (471 bp):
CACACATTTTTAAAAAAAAGTTGGATAAAATCATTTAAATGTTCATTCAAATACATTATATTTCC
TAAAGAAATTTTGAAATGCAAGTTCACTCACCGGTCTTGTTGATTCTTTTGCTTGACTTTAACCT
CAACTAATACTCCAAATGGACATGTGAGGCCTTGTTGGAACCTATACACACACAACATCACAACC
AACCAAAATTGGCATTAATATAATCCAAAAGCTCTTTCCTAATCAAGTTCCACTAGTTATTCCTA
ACTAGCTTCCAATTGCCATTAAATGGCTAGTTATTCACACTACTCTAGTCACCCTAAGAGTGAAT
AAACAACCTCAATGATAAAACACTCACAAACCCCATTGTTAGCCATTATCAACAACTAAAGAAAT
TTAACCCTAACTTATACTCACCTTGATGGTCTTTGTAGTTGAATTTTCTTTCAAAATTCTTCAAG
CTAACAAGGGAAATCA
Found at i:7369777 original size:2 final size:2
Alignment explanation
Indices: 7369770--7369805 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7369760 TAGAGAACCA
7369770 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7369806 GTATGTGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7370596 original size:2 final size:2
Alignment explanation
Indices: 7370589--7370637 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
7370579 TTGAGTATGC
7370589 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7370631 TA TA TA T
1 TA TA TA T
7370638 GCATGTGTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7372020 original size:16 final size:17
Alignment explanation
Indices: 7371992--7372025 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
7371982 AGACATTCTT
7371992 AAAATAAAGCTAACTAA
1 AAAATAAAGCTAACTAA
7372009 AAAATAAA-CTAACTAA
1 AAAATAAAGCTAACTAA
7372025 A
1 A
7372026 TTCTAAACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.68, C:0.12, G:0.03, T:0.18
Consensus pattern (17 bp):
AAAATAAAGCTAACTAA
Found at i:7381163 original size:13 final size:13
Alignment explanation
Indices: 7381147--7381173 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7381137 AATTAAGCCC
7381147 AATAATTTAATTA
1 AATAATTTAATTA
7381160 AATAATTTAATTA
1 AATAATTTAATTA
7381173 A
1 A
7381174 TTAAGCCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATAATTTAATTA
Found at i:7381352 original size:35 final size:35
Alignment explanation
Indices: 7381093--7381353 Score: 324
Period size: 35 Copynumber: 7.4 Consensus size: 35
7381083 TTAATTGTTT
* *
7381093 AATTTAATCAATTAGGCTCAATAACTTAATTAAAC
1 AATTTAATTAATTAGGCCCAATAACTTAATTAAAC
* * *
7381128 AATTTAATTAATTAAGCCCAATAATTTAATTAAAT
1 AATTTAATTAATTAGGCCCAATAACTTAATTAAAC
* * *
7381163 AATTTAATTAATTAAGCCCAACAATTTAATTAAAC
1 AATTTAATTAATTAGGCCCAATAACTTAATTAAAC
* *
7381198 AATTTTAATCAATTAGGCCCAATGACTTAATTAAAC
1 AA-TTTAATTAATTAGGCCCAATAACTTAATTAAAC
* * ****
7381234 AGATTTAATCAAGTAGGCCCAATAACTTAATTGTTT
1 A-ATTTAATTAATTAGGCCCAATAACTTAATTAAAC
*
7381270 AATTTAATTAATTAGGCCCAATGACTTAATTAAAC
1 AATTTAATTAATTAGGCCCAATAACTTAATTAAAC
* *
7381305 AATTTAATTAATTAGGCCCAATGATTTAATTAAAC
1 AATTTAATTAATTAGGCCCAATAACTTAATTAAAC
*
7381340 AATTTAACTAATTA
1 AATTTAATTAATTA
7381354 TTAAACAATT
Statistics
Matches: 197, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
35 139 0.71
36 57 0.29
37 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (35 bp):
AATTTAATTAATTAGGCCCAATAACTTAATTAAAC
Found at i:7385538 original size:17 final size:18
Alignment explanation
Indices: 7385505--7385539 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
7385495 CTAATTGTAG
7385505 AGTTCTAATCATTATTAGA
1 AGTTCTAAT-ATTATTAGA
7385524 AGTTCTAAT-TTATTAG
1 AGTTCTAATATTATTAG
7385540 TAAATTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (18 bp):
AGTTCTAATATTATTAGA
Found at i:7389071 original size:13 final size:11
Alignment explanation
Indices: 7389038--7389070 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
7389028 AGAATTGTTG
7389038 AAAGCCACACA
1 AAAGCCACACA
7389049 AAAGCCACACA
1 AAAGCCACACA
7389060 AAAGCCACACA
1 AAAGCCACACA
7389071 CTCATACCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.55, C:0.36, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAGCCACACA
Found at i:7398242 original size:19 final size:17
Alignment explanation
Indices: 7398218--7398260 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
7398208 AAAATAGCAT
7398218 AAAATAAAATAACTTAATA
1 AAAATAAAATAA-TTAA-A
*
7398237 AAAATAAACTAATTAAA
1 AAAATAAAATAATTAAA
7398254 AAAATAA
1 AAAATAA
7398261 CTAAAGTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.35
18 4 0.17
19 11 0.48
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAATAAAATAATTAAA
Found at i:7398262 original size:16 final size:15
Alignment explanation
Indices: 7398223--7398264 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
7398213 AGCATAAAAT
7398223 AAAATAACTTAATAAA
1 AAAATAAC-TAATAAA
*
7398239 AATA-AACTAATTAAA
1 AAAATAACTAA-TAAA
7398254 AAAATAACTAA
1 AAAATAACTAA
7398265 AGTTGATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 3 0.14
15 10 0.45
16 9 0.41
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAATAACTAATAAA
Found at i:7411435 original size:46 final size:47
Alignment explanation
Indices: 7411355--7411447 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 47
7411345 AAAACATGTG
7411355 ATTAAATTATAGTCAAGGGTAATTTAATCTTTTGGCATAAATATTTT
1 ATTAAATTATAGTCAAGGGTAATTTAATCTTTTGGCATAAATATTTT
* * * ** * *
7411402 ATTATATTATAGTTAAGTGT-ATTTTTTCTTTTGGTATAAGTATTTT
1 ATTAAATTATAGTCAAGGGTAATTTAATCTTTTGGCATAAATATTTT
7411448 CGTCTTTTGA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
46 22 0.56
47 17 0.44
ACGTcount: A:0.31, C:0.04, G:0.13, T:0.52
Consensus pattern (47 bp):
ATTAAATTATAGTCAAGGGTAATTTAATCTTTTGGCATAAATATTTT
Found at i:7425800 original size:43 final size:43
Alignment explanation
Indices: 7425744--7425904 Score: 207
Period size: 43 Copynumber: 3.8 Consensus size: 43
7425734 GTAATGATAT
* *
7425744 TGACTCGGTTATGTGCGAGTAGAGAGTGCGCATAAGCCAATGA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAAGCCAATGA
7425787 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAAGCCAATGA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAAGCCAATGA
* * * **
7425830 TGACCCGATTATGTGCGAGTAGGGAGTGAGCATAACCCTGTGA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAAGCCAATGA
*** **
7425873 TGACTTAGCCATGTGCGAGTA-GGAGTGCGCAT
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCAT
7425905 GAGCTGGGAA
Statistics
Matches: 104, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 10 0.10
43 94 0.90
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.23
Consensus pattern (43 bp):
TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAAGCCAATGA
Found at i:7425950 original size:26 final size:26
Alignment explanation
Indices: 7425914--7425974 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
7425904 TGAGCTGGGA
* *
7425914 ATGATGATGATGGGATGGTTTGTATG
1 ATGATGATGATGGGATGGTGTGCATG
7425940 ATGATGATGATGGGATGGTGTGCATG
1 ATGATGATGATGGGATGGTGTGCATG
7425966 ATGATGATG
1 ATGATGATG
7425975 GGTATATGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.25, C:0.02, G:0.39, T:0.34
Consensus pattern (26 bp):
ATGATGATGATGGGATGGTGTGCATG
Found at i:7430059 original size:49 final size:50
Alignment explanation
Indices: 7429961--7430062 Score: 181
Period size: 49 Copynumber: 2.1 Consensus size: 50
7429951 TTTTTTATAA
7429961 TTTATAATTAAAACATTAAAATTTTTATTTTAATTTCATTTTAATCTTTC
1 TTTATAATTAAAACATTAAAATTTTTATTTTAATTTCATTTTAATCTTTC
7430011 NTTTATAATT-AAACATT-AAATTTTTATTTTAATTTCATTTTAATCTTTC
1 -TTTATAATTAAAACATTAAAATTTTTATTTTAATTTCATTTTAATCTTTC
7430060 TTT
1 TTT
7430063 TTTCTTTTCT
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
48 3 0.06
49 32 0.63
50 7 0.14
51 9 0.18
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (50 bp):
TTTATAATTAAAACATTAAAATTTTTATTTTAATTTCATTTTAATCTTTC
Found at i:7434312 original size:20 final size:20
Alignment explanation
Indices: 7434287--7434338 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
7434277 TTTATATTTA
7434287 AATGTTTATTTTAAGTTAGT
1 AATGTTTATTTTAAGTTAGT
* * *
7434307 AATGTTAATTTTATGTTATT
1 AATGTTTATTTTAAGTTAGT
* *
7434327 TATATTTATTTT
1 AATGTTTATTTT
7434339 TATGTTTTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.62
Consensus pattern (20 bp):
AATGTTTATTTTAAGTTAGT
Found at i:7438543 original size:20 final size:20
Alignment explanation
Indices: 7438493--7438550 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
7438483 TTTATATTTA
*
7438493 AATATTTATTTTAAGTTAAT
1 AATATTTATTTTATGTTAAT
* * *
7438513 AATGTTAATTTTATGTTATT
1 AATATTTATTTTATGTTAAT
*
7438533 TATATTTATTTTTATGTT
1 AATATTTA-TTTTATGTT
7438551 TTTGTAGGAG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 21 0.70
21 9 0.30
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (20 bp):
AATATTTATTTTATGTTAAT
Found at i:7473724 original size:27 final size:25
Alignment explanation
Indices: 7473694--7473807 Score: 88
Period size: 27 Copynumber: 4.4 Consensus size: 25
7473684 TAATTACTAT
7473694 TATATATATACTAAAATACTTTTAATA
1 TATATATATACTAAAATA--TTTAATA
* *
7473721 TATATATATACTTTAAATA-TAAATA
1 TATATATATAC-TAAAATATTTAATA
* ** * * *
7473746 TATTTATA-AGGAATATAATTACTA
1 TATATATATACTAAAATATTTAATA
7473770 TTATATATATACTAAAATACTTTATATA
1 -TATATATATACTAAAATA-TTTA-ATA
7473798 TATATATATA
1 TATATATATA
7473808 TAGTTTAAAT
Statistics
Matches: 66, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
23 4 0.06
24 5 0.08
25 19 0.29
26 6 0.09
27 24 0.36
28 8 0.12
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (25 bp):
TATATATATACTAAAATATTTAATA
Found at i:7473748 original size:21 final size:21
Alignment explanation
Indices: 7473709--7473834 Score: 63
Period size: 21 Copynumber: 6.3 Consensus size: 21
7473699 ATATACTAAA
*
7473709 ATACTTTTAATAT--ATATAT
1 ATACTTTAAATATAAATATAT
7473728 ATACTTTAAATATAAATATAT
1 ATACTTTAAATATAAATATAT
* ** *
7473749 -T--TATAAGGA-ATATA-AT
1 ATACTTTAAATATAAATATAT
* * *
7473765 -TACTATTATATATATACTA-AA
1 ATACT-TTAAATATA-AATATAT
* *
7473786 ATACTTTATATATATATATAT
1 ATACTTTAAATATAAATATAT
*
7473807 ATAGTTTAAATATAAATATAT
1 ATACTTTAAATATAAATATAT
*
7473828 TTACTTT
1 ATACTTT
7473835 TTATTTTGTG
Statistics
Matches: 78, Mismatches: 20, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
16 3 0.04
17 4 0.05
18 6 0.08
19 15 0.19
20 4 0.05
21 42 0.54
22 4 0.05
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (21 bp):
ATACTTTAAATATAAATATAT
Found at i:7473756 original size:77 final size:79
Alignment explanation
Indices: 7473669--7473830 Score: 301
Period size: 77 Copynumber: 2.1 Consensus size: 79
7473659 ATATTGGGTT
7473669 TATTTATAAGGAATATAATTACTATTATATATATACTAAAATACTTT-TA-ATATATATATATAC
1 TATTTATAAGGAATATAATTACTATTATATATATACTAAAATACTTTATATATATATATATATAC
7473732 TTTAAATATAAATA
66 TTTAAATATAAATA
*
7473746 TATTTATAAGGAATATAATTACTATTATATATATACTAAAATACTTTATATATATATATATATAG
1 TATTTATAAGGAATATAATTACTATTATATATATACTAAAATACTTTATATATATATATATATAC
7473811 TTTAAATATAAATA
66 TTTAAATATAAATA
7473825 TATTTA
1 TATTTA
7473831 CTTTTTATTT
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
77 47 0.57
78 2 0.02
79 33 0.40
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (79 bp):
TATTTATAAGGAATATAATTACTATTATATATATACTAAAATACTTTATATATATATATATATAC
TTTAAATATAAATA
Found at i:7478263 original size:85 final size:84
Alignment explanation
Indices: 7478146--7478414 Score: 333
Period size: 85 Copynumber: 3.2 Consensus size: 84
7478136 TATTAATTCC
* * * *
7478146 AATATTTAATTCCAGCATATTGCCAATCATTTTAATTAAAAATCTAAATAATAATTATAAACATT
1 AATATTTAATTCTAGCATATTGCCAATCATTTTAATTAAAAATCCAAACAATAATTCTAAACATT
*
7478211 AATTCTCAAATATAATTCTT
66 AATTC-CAAACATAATTCTT
* ** * * * *
7478231 AATGTTTAATTCTAGCATATTGTTAATAATTTTATTTGAAAATCCAAGCAATAATTCTAAACATT
1 AATATTTAATTCTAGCATATTGCCAATCATTTTAATTAAAAATCCAAACAATAATTCTAAACATT
*
7478296 AATTCCCAAACATAATTTTT
66 AATT-CCAAACATAATTCTT
* * * *
7478316 TATATTTCATTTTAGCATATTACCAATCATTTTAATTAAAAATCCAAACAATAATTCTAAACATT
1 AATATTTAATTCTAGCATATTGCCAATCATTTTAATTAAAAATCCAAACAATAATTCTAAACATT
7478381 AACTTCCAAACATAATT-TGT
66 AA-TTCCAAACATAATTCT-T
*
7478401 AATGTTTAATTCTA
1 AATATTTAATTCTA
7478415 ACATCCATAC
Statistics
Matches: 153, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
84 1 0.01
85 149 0.97
86 3 0.02
ACGTcount: A:0.42, C:0.14, G:0.04, T:0.41
Consensus pattern (84 bp):
AATATTTAATTCTAGCATATTGCCAATCATTTTAATTAAAAATCCAAACAATAATTCTAAACATT
AATTCCAAACATAATTCTT
Found at i:7478439 original size:132 final size:132
Alignment explanation
Indices: 7478294--7478546 Score: 411
Period size: 132 Copynumber: 1.9 Consensus size: 132
7478284 ATTCTAAACA
* * *
7478294 TTAATTCCCAAACATAATTTTTTATATTTCATTTTAGCATATTACCAATCATTTTAATTAAAAAT
1 TTAATTCCCAAACATAATTTTTAATATTTAATTCTAGCATATTACCAATCATTTTAATTAAAAAT
7478359 CCAAACAATAATTCTAAACATTAACTT-CCAAACATAATT-TGTAATGTTTAATTCTAACATCCA
66 CCAAACAATAATTCTAAACATTAA-TTCCCAAACATAATTCT-TAATGTTTAATTCTAACATCCA
7478422 TACG
129 TACG
* * **
7478426 TTAATTCCCAAACATAATTTTTAATGTTTAATTCTAGTATATTACCAATCATTTTAATTAATTAT
1 TTAATTCCCAAACATAATTTTTAATATTTAATTCTAGCATATTACCAATCATTTTAATTAAAAAT
7478491 CCAAACAATAATTCTAAACATTAATTCCCAAACATAATTCTTAATGTTTAATTCTA
66 CCAAACAATAATTCTAAACATTAATTCCCAAACATAATTCTTAATGTTTAATTCTA
7478547 GCATATCACC
Statistics
Matches: 112, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
131 2 0.02
132 109 0.97
133 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.41
Consensus pattern (132 bp):
TTAATTCCCAAACATAATTTTTAATATTTAATTCTAGCATATTACCAATCATTTTAATTAAAAAT
CCAAACAATAATTCTAAACATTAATTCCCAAACATAATTCTTAATGTTTAATTCTAACATCCATA
CG
Found at i:7478523 original size:85 final size:84
Alignment explanation
Indices: 7478426--7478676 Score: 384
Period size: 85 Copynumber: 3.0 Consensus size: 84
7478416 CATCCATACG
*
7478426 TTAATTCCCAAACATAATTTTTAATGTTTAATTCTAGTATATTACCAATCATTTTAATTAATTAT
1 TTAATTCCCAAACATAATTCTTAATGTTTAATTCTAG-ATATTACCAATCATTTTAATTAATTAT
7478491 CCAAACAATAATTCTAAACA
65 CCAAACAATAATTCTAAACA
* * *
7478511 TTAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATATCACCAATCATTTTAATTAA-AAA
1 TTAATTCCCAAACATAATTCTTAATGTTTAATTCTAG-ATATTACCAATCATTTTAATTAATTAT
7478575 CTCAAACAATAATTCTAAACA
65 C-CAAACAATAATTCTAAACA
* * *
7478596 TGAATTCCCAAACATAATTCTTAATGTTTAATTCTAG-CA-T-CAAATCATTTTAATTAATTATC
1 TTAATTCCCAAACATAATTCTTAATGTTTAATTCTAGATATTACCAATCATTTTAATTAATTATC
7478658 CAAACAATAATTCTAAACA
66 CAAACAATAATTCTAAACA
7478677 GTAAACTCTT
Statistics
Matches: 153, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
81 35 0.23
82 2 0.01
83 1 0.01
84 2 0.01
85 113 0.74
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (84 bp):
TTAATTCCCAAACATAATTCTTAATGTTTAATTCTAGATATTACCAATCATTTTAATTAATTATC
CAAACAATAATTCTAAACA
Found at i:7478584 original size:217 final size:217
Alignment explanation
Indices: 7478209--7478636 Score: 621
Period size: 217 Copynumber: 2.0 Consensus size: 217
7478199 ATTATAAACA
* * *** *
7478209 TTAATTCTCAAATATAATTCTTAATGTTTAATTCTAGCATATTGTTAATAATTTTATTTGAAAAT
1 TTAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATATTACCAATAATTTTAATTGAAAAT
* * * * * *
7478274 CCAAGCAATAATTCTAAACATTAATTCCCAAACATAATTTTTTATATTTCATTTTAGCATATTAC
66 CCAAACAATAATTCTAAACATTAATTCCCAAACATAATTCTTAATATTTAATTCTAGCATATCAC
*
7478339 CAATCATTTTAATTAAAAATCCAAACAATAATTCTAAACATTAACTT-CCAAACATAATT-TGTA
131 CAATCATTTTAATTAAAAATCCAAACAATAATTCTAAACATGAA-TTCCCAAACATAATTCT-TA
7478402 ATGTTTAATTCTAACATCCATACG
194 ATGTTTAATTCTAACATCCATACG
* * * *
7478426 TTAATTCCCAAACATAATTTTTAATGTTTAATTCTAGTATATTACCAATCATTTTAATT-AATTA
1 TTAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATATTACCAATAATTTTAATTGAA-AA
*
7478490 TCCAAACAATAATTCTAAACATTAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATATCA
65 TCCAAACAATAATTCTAAACATTAATTCCCAAACATAATTCTTAATATTTAATTCTAGCATATCA
7478555 CCAATCATTTTAATTAAAAA-CTCAAACAATAATTCTAAACATGAATTCCCAAACATAATTCTTA
130 CCAATCATTTTAATTAAAAATC-CAAACAATAATTCTAAACATGAATTCCCAAACATAATTCTTA
*
7478619 ATGTTTAATTCTAGCATC
194 ATGTTTAATTCTAACATC
7478637 AAATCATTTT
Statistics
Matches: 188, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
216 5 0.03
217 182 0.97
218 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.39
Consensus pattern (217 bp):
TTAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATATTACCAATAATTTTAATTGAAAAT
CCAAACAATAATTCTAAACATTAATTCCCAAACATAATTCTTAATATTTAATTCTAGCATATCAC
CAATCATTTTAATTAAAAATCCAAACAATAATTCTAAACATGAATTCCCAAACATAATTCTTAAT
GTTTAATTCTAACATCCATACG
Found at i:7480093 original size:23 final size:24
Alignment explanation
Indices: 7480061--7480110 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
7480051 TTTTTAAAAG
7480061 TAACTACAAAAGCTTATTATT-TT
1 TAACTACAAAAGCTTATTATTATT
* * *
7480084 TAACTTCAAAATCTTATTTTTATT
1 TAACTACAAAAGCTTATTATTATT
7480108 TAA
1 TAA
7480111 AATTTTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (24 bp):
TAACTACAAAAGCTTATTATTATT
Found at i:7489724 original size:2 final size:2
Alignment explanation
Indices: 7489717--7489743 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7489707 TTGATTGAAA
7489717 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
7489744 ATCTTTAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:7490621 original size:20 final size:19
Alignment explanation
Indices: 7490586--7490623 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
7490576 TGTGTGAATT
7490586 TCATGAGAACAGTATTTTA
1 TCATGAGAACAGTATTTTA
7490605 TCATGTAGAAGCA-TATTTT
1 TCATG-AGAA-CAGTATTTT
7490624 GAAAATGTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 10 0.59
21 2 0.12
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (19 bp):
TCATGAGAACAGTATTTTA
Found at i:7501293 original size:15 final size:15
Alignment explanation
Indices: 7501265--7501303 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
7501255 TTTAACTTTT
7501265 TTTATTAGACTATTC
1 TTTATTAGACTATTC
*
7501280 ATTT-TTAGAGTATTC
1 -TTTATTAGACTATTC
7501295 TTTATTAGA
1 TTTATTAGA
7501304 AAGAAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 15 0.71
16 3 0.14
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.54
Consensus pattern (15 bp):
TTTATTAGACTATTC
Found at i:7501582 original size:21 final size:21
Alignment explanation
Indices: 7501549--7501598 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
7501539 AGTGTTTAGG
*
7501549 TATTACGTGACTGACTTTGGA
1 TATTACGTAACTGACTTTGGA
* *
7501570 TATTGCGTAACTGACTTTGGG
1 TATTACGTAACTGACTTTGGA
*
7501591 CATTACGT
1 TATTACGT
7501599 GACTAATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (21 bp):
TATTACGTAACTGACTTTGGA
Found at i:7501675 original size:22 final size:23
Alignment explanation
Indices: 7501634--7501676 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
7501624 TGACTAGTTT
**
7501634 TTGATAAGGCATTGTGTGACTAA
1 TTGATAAGGCATTGCATGACTAA
7501657 TTGAT-AGGCATTGCATGACT
1 TTGATAAGGCATTGCATGACT
7501677 GACTTTGGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.35
Consensus pattern (23 bp):
TTGATAAGGCATTGCATGACTAA
Found at i:7501678 original size:95 final size:94
Alignment explanation
Indices: 7501579--7501762 Score: 271
Period size: 95 Copynumber: 1.9 Consensus size: 94
7501569 ATATTGCGTA
* * *
7501579 ACTGACTTTGGGCATTACGTGACTAATTTTTTATAAAGCATTGTATGACTAGTTTTTGATAAGGC
1 ACTGACTTTGGGCATTACGTGACTAAGTTTTGATAAAGCATTGCATGACTAGTTTTTGATAAGGC
*
7501644 AT-TGTGTGACTAATTGATAGGCATTGCATG
66 -TGTGCGTGACTAATT-ATAGGCATTGCATG
* * *
7501674 ACTGACTTTGGGCATTACGTGACTAGGTTTTGATAAGGCATTGCGTGACTAGTTTTTGATAAGGC
1 ACTGACTTTGGGCATTACGTGACTAAGTTTTGATAAAGCATTGCATGACTAGTTTTTGATAAGGC
*
7501739 TGTGCGTGACTAATTTTAGGCATT
66 TGTGCGTGACTAATTATAGGCATT
7501763 AAGTAACTAG
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
94 9 0.11
95 71 0.89
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.38
Consensus pattern (94 bp):
ACTGACTTTGGGCATTACGTGACTAAGTTTTGATAAAGCATTGCATGACTAGTTTTTGATAAGGC
TGTGCGTGACTAATTATAGGCATTGCATG
Found at i:7501789 original size:72 final size:72
Alignment explanation
Indices: 7501626--7501822 Score: 233
Period size: 72 Copynumber: 2.8 Consensus size: 72
7501616 GCATTGTATG
* * * * *
7501626 ACTAGTTTTTGATAAGGCATTGTGTGACTA---ATTGAT-AGGCATTGCATGACTGACTTTGGGC
1 ACTAG-TTTTGATAAGGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAACTTTAGGC
* *
7501687 ATTACGTG
65 ATTAAGTA
*
7501695 ACTAGGTTTTGATAAGGCATTGCGTGACTAGTTTTTGATAAGGC-TGTGCGTGACTAATTTTAGG
1 ACTA-GTTTTGATAAGGCATTGCGTGACTAGTTTTTGATAAGGCAT-TGCGTGACTAACTTTAGG
7501759 CATTAAGTA
64 CATTAAGTA
* * *
7501768 ACTAGTTTTGATAAGGTATTGCGTGACTAGTTTCTGATAAGACATTGCGTGACTA
1 ACTAGTTTTGATAAGGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTA
7501823 GTTGATAGGT
Statistics
Matches: 110, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
69 27 0.25
70 1 0.01
72 52 0.47
73 30 0.27
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (72 bp):
ACTAGTTTTGATAAGGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAACTTTAGGCA
TTAAGTA
Found at i:7501824 original size:26 final size:25
Alignment explanation
Indices: 7501589--7501932 Score: 182
Period size: 26 Copynumber: 14.5 Consensus size: 25
7501579 ACTGACTTTG
* * *
7501589 GGCATTACGTGACTAATTTTTTATAA
1 GGCATTGCGTGACT-AGTTTTGATAA
* **
7501615 AGCATTGTATGACTAGTTTTTGATAA
1 GGCATTGCGTGACTAG-TTTTGATAA
* *
7501641 GGCATTGTGTGACTA--ATTGAT-A
1 GGCATTGCGTGACTAGTTTTGATAA
* *
7501663 GGCATTGCATGACT-GACTTTG----
1 GGCATTGCGTGACTAG-TTTTGATAA
*
7501684 GGCATTACGTGACTAGGTTTTGATAA
1 GGCATTGCGTGACTA-GTTTTGATAA
7501710 GGCATTGCGTGACTAGTTTTTGATAA
1 GGCATTGCGTGACTAG-TTTTGATAA
*
7501736 GGC-TGTGCGTGACTA-ATTT--T-A
1 GGCAT-TGCGTGACTAGTTTTGATAA
** *
7501757 GGCATTAAGTAACTAGTTTTGATAA
1 GGCATTGCGTGACTAGTTTTGATAA
*
7501782 GGTATTGCGTGACTAGTTTCTGATAA
1 GGCATTGCGTGACTAGTTT-TGATAA
*
7501808 GACATTGCGTGACTAG--TTGAT-A
1 GGCATTGCGTGACTAGTTTTGATAA
* * *
7501830 GGTATTGCTTGACT--TGTTGAT-A
1 GGCATTGCGTGACTAGTTTTGATAA
* *
7501852 GGTATTGCGTGACT--TATT-AGTAA
1 GGCATTGCGTGACTAGTTTTGA-TAA
* * * *
7501875 GGTATTACGTGACTTG-TTAG-TAA
1 GGCATTGCGTGACTAGTTTTGATAA
*
7501898 GGCATTGCGTGACTAG-TTAG-TAA
1 GGCATTGCGTGACTAGTTTTGATAA
*
7501921 GGCATTGTGTGA
1 GGCATTGCGTGA
7501933 TTTAGGCATT
Statistics
Matches: 254, Mismatches: 39, Indels: 53
0.73 0.11 0.15
Matches are distributed among these distances:
21 24 0.09
22 57 0.22
23 58 0.23
24 9 0.04
25 19 0.07
26 87 0.34
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.38
Consensus pattern (25 bp):
GGCATTGCGTGACTAGTTTTGATAA
Found at i:7501837 original size:22 final size:23
Alignment explanation
Indices: 7501775--7501932 Score: 130
Period size: 23 Copynumber: 6.8 Consensus size: 23
7501765 GTAACTAGTT
7501775 TTGATAAGGTATTGCGTGACTAG
1 TTGATAAGGTATTGCGTGACTAG
**
7501798 TTTCTGATAAGACATTGCGTGACTAG
1 --T-TGATAAGGTATTGCGTGACTAG
* *
7501824 TTGAT-AGGTATTGCTTGACTTG
1 TTGATAAGGTATTGCGTGACTAG
7501846 TTGAT-AGGTATTGCGTGACTTA-
1 TTGATAAGGTATTGCGTGAC-TAG
* *
7501868 TT-AGTAAGGTATTACGTGACTTG
1 TTGA-TAAGGTATTGCGTGACTAG
*
7501891 TT-AGTAAGGCATTGCGTGACTAG
1 TTGA-TAAGGTATTGCGTGACTAG
* *
7501914 TT-AGTAAGGCATTGTGTGA
1 TTGA-TAAGGTATTGCGTGA
7501933 TTTAGGCATT
Statistics
Matches: 114, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
21 1 0.01
22 35 0.31
23 56 0.49
24 1 0.01
25 1 0.01
26 20 0.18
ACGTcount: A:0.25, C:0.10, G:0.28, T:0.37
Consensus pattern (23 bp):
TTGATAAGGTATTGCGTGACTAG
Found at i:7501880 original size:45 final size:46
Alignment explanation
Indices: 7501779--7501932 Score: 147
Period size: 46 Copynumber: 3.3 Consensus size: 46
7501769 CTAGTTTTGA
* * *
7501779 TAAGGTATTGCGTGACTAGTTTCTGATAAGACATTGCGTGACTAGTT-G
1 TAAGGTATTGCGTGACTTG-TT-AG-TAAGGCATTGCGTGACTAGTTAG
* *
7501827 -ATAGGTATTGCTTGACTTGTT-G-ATAGGTATTGCGTGACTTA-TTAG
1 TA-AGGTATTGCGTGACTTGTTAGTA-AGGCATTGCGTGAC-TAGTTAG
*
7501872 TAAGGTATTACGTGACTTGTTAGTAAGGCATTGCGTGACTAGTTAG
1 TAAGGTATTGCGTGACTTGTTAGTAAGGCATTGCGTGACTAGTTAG
* *
7501918 TAAGGCATTGTGTGA
1 TAAGGTATTGCGTGA
7501933 TTTAGGCATT
Statistics
Matches: 88, Mismatches: 10, Indels: 18
0.76 0.09 0.16
Matches are distributed among these distances:
43 1 0.01
44 14 0.16
45 23 0.26
46 31 0.35
47 4 0.05
48 15 0.17
ACGTcount: A:0.25, C:0.10, G:0.28, T:0.37
Consensus pattern (46 bp):
TAAGGTATTGCGTGACTTGTTAGTAAGGCATTGCGTGACTAGTTAG
Found at i:7501979 original size:22 final size:22
Alignment explanation
Indices: 7501946--7502019 Score: 107
Period size: 22 Copynumber: 3.4 Consensus size: 22
7501936 AGGCATTACT
*
7501946 TAAAAA-TCAGTCACGCAATGTC
1 TAAAAACT-AGTCACGTAATGTC
7501968 TAAAAACTAGTCACGTAATGTC
1 TAAAAACTAGTCACGTAATGTC
*
7501990 T-AAAACTAATCACGTAATGTC
1 TAAAAACTAGTCACGTAATGTC
7502011 TAAAAACTA
1 TAAAAACTA
7502020 ATTACATAGT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
21 20 0.42
22 27 0.56
23 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.26
Consensus pattern (22 bp):
TAAAAACTAGTCACGTAATGTC
Found at i:7501996 original size:21 final size:21
Alignment explanation
Indices: 7501954--7502015 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
7501944 CTTAAAAATC
*
7501954 AGTCACGCAATGTCTAAAAACT
1 AGTCACGTAATGTCT-AAAACT
7501976 AGTCACGTAATGTCTAAAACT
1 AGTCACGTAATGTCTAAAACT
*
7501997 AATCACGTAATGTCTAAAA
1 AGTCACGTAATGTCTAAAA
7502016 ACTAATTACA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 24 0.63
22 14 0.37
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (21 bp):
AGTCACGTAATGTCTAAAACT
Found at i:7502429 original size:22 final size:22
Alignment explanation
Indices: 7502396--7502479 Score: 73
Period size: 22 Copynumber: 3.9 Consensus size: 22
7502386 TCCATCAAAC
* *
7502396 ATGCTTAAAAATCAGTTACGCA
1 ATGCCTAAAAATCAGTCACGCA
* * *
7502418 ATGTCTAAAAATTAGTCACGTA
1 ATGCCTAAAAATCAGTCACGCA
* * *
7502440 ATGCCT-AAAACCAATCACGTA
1 ATGCCTAAAAATCAGTCACGCA
7502461 ATGCCTAAAAA-CTAGTCAC
1 ATGCCTAAAAATC-AGTCAC
7502480 ACAGTGATTA
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
21 19 0.38
22 31 0.62
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (22 bp):
ATGCCTAAAAATCAGTCACGCA
Found at i:7504411 original size:16 final size:16
Alignment explanation
Indices: 7504390--7504423 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7504380 TATTAAGAAA
*
7504390 AATTAATAGTAAACTT
1 AATTAATAATAAACTT
*
7504406 AATTAATAATATACTT
1 AATTAATAATAAACTT
7504422 AA
1 AA
7504424 GATATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (16 bp):
AATTAATAATAAACTT
Found at i:7504643 original size:23 final size:23
Alignment explanation
Indices: 7504617--7504674 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
7504607 ATATTATGAA
*
7504617 TATATATATAATTATA-TAAATAT
1 TATATATATAAATATATTAAAT-T
*
7504640 TATATATATAAATATATTTAATT
1 TATATATATAAATATATTAAATT
*
7504663 TATATACATAAA
1 TATATATATAAA
7504675 CATTACTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 27 0.87
24 4 0.13
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TATATATATAAATATATTAAATT
Found at i:7505111 original size:17 final size:16
Alignment explanation
Indices: 7505091--7505137 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
7505081 ATAAAATAAT
7505091 ATATTTTACATATATAC
1 ATATTTTA-ATATATAC
*
7505108 ATATATTTAATTTATAC
1 ATAT-TTTAATATATAC
*
7505125 ATAATTT-ATATAT
1 ATATTTTAATATAT
7505138 TTTATAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 5 0.19
16 3 0.12
17 14 0.54
18 4 0.15
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATTTTAATATATAC
Found at i:7505111 original size:19 final size:18
Alignment explanation
Indices: 7505089--7505131 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
7505079 TAATAAAATA
7505089 ATATATTTTACATATATAC
1 ATATATTTTA-ATATATAC
*
7505108 ATATA-TTTAATTTATAC
1 ATATATTTTAATATATAC
7505125 ATA-ATTT
1 ATATATTT
7505132 ATATATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 1 0.05
17 12 0.55
18 4 0.18
19 5 0.23
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATATTTTAATATATAC
Found at i:7505196 original size:34 final size:35
Alignment explanation
Indices: 7505139--7505206 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 35
7505129 TTTATATATT
* *
7505139 TTATAATTATGAATAAAATTTAT-AAATTTTAATA
1 TTATAATTATGAAAAAAAATTATAAAATTTTAATA
7505173 TTATAATT-TGTAAAAAAAATTATAAAATTTTAAT
1 TTATAATTATG-AAAAAAAATTATAAAATTTTAAT
7505207 GCATTGATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 2 0.07
34 18 0.60
35 10 0.33
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (35 bp):
TTATAATTATGAAAAAAAATTATAAAATTTTAATA
Found at i:7512950 original size:20 final size:20
Alignment explanation
Indices: 7512921--7512959 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7512911 TTTTTGAGAA
7512921 CCAAAAGTATCAATACATTG
1 CCAAAAGTATCAATACATTG
* *
7512941 CCAAATGTATTAATACATT
1 CCAAAAGTATCAATACATT
7512960 TCGTCAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.31
Consensus pattern (20 bp):
CCAAAAGTATCAATACATTG
Found at i:7514242 original size:64 final size:64
Alignment explanation
Indices: 7514141--7514262 Score: 190
Period size: 64 Copynumber: 1.9 Consensus size: 64
7514131 CTAGAGCTTT
* **
7514141 CACATGGTGTGAGGTAACATTCCATAAGTGGTGAATTACATTTAGCATGATGATGATAGCGTTC
1 CACATGGTGTGAGGTAACATTCCACAAGTGGTGAATTACACCTAGCATGATGATGATAGCGTTC
* * *
7514205 CACATGGTGTGAGGTAACATTCCGCACGTGGTGAATTACACCTAGTATGATGATGATA
1 CACATGGTGTGAGGTAACATTCCACAAGTGGTGAATTACACCTAGCATGATGATGATA
7514263 ACATTCAACA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (64 bp):
CACATGGTGTGAGGTAACATTCCACAAGTGGTGAATTACACCTAGCATGATGATGATAGCGTTC
Found at i:7514283 original size:64 final size:64
Alignment explanation
Indices: 7514151--7514301 Score: 176
Period size: 64 Copynumber: 2.4 Consensus size: 64
7514141 CACATGGTGT
* * ** * * * * * *
7514151 GAGGTAACATTCCATAAGTGGTGAATTACATTTAGCATGATGATGATAGCGTTCCACATGGTGT
1 GAGGTAACATTCCACACGTGGTGAATTACACCTAGCATGATGATGATAACATTCAACACGATGC
* *
7514215 GAGGTAACATTCCGCACGTGGTGAATTACACCTAGTATGATGATGATAACATTCAACACGATGC
1 GAGGTAACATTCCACACGTGGTGAATTACACCTAGCATGATGATGATAACATTCAACACGATGC
* *
7514279 GAGGTTAGATTCCACACGTGGTG
1 GAGGTAACATTCCACACGTGGTG
7514302 CCAATGCACA
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
64 72 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (64 bp):
GAGGTAACATTCCACACGTGGTGAATTACACCTAGCATGATGATGATAACATTCAACACGATGC
Found at i:7518917 original size:60 final size:60
Alignment explanation
Indices: 7518789--7518961 Score: 251
Period size: 60 Copynumber: 2.9 Consensus size: 60
7518779 AAACATCATC
*
7518789 ACCTACTCGTGAGAACTGCCCACGCCA-TCATATATAAATCA-AGCTTCAGGTCCCCCTTT
1 ACCTACTCGTGGGAACTGCCCACGCCACTCA-ATATAAATCAGAGCTTCAGGTCCCCCTTT
* * *
7518848 ACCTACTCGTGGGAACTACCCACGCCACCCAATATAAATAAGAGCTTCAGGTCCCCCTTT
1 ACCTACTCGTGGGAACTGCCCACGCCACTCAATATAAATCAGAGCTTCAGGTCCCCCTTT
* * * *
7518908 ACCTACTCGTGGAAACTGCCCACGCCACTCAATATAGATCGGGGCTTCAGGTCC
1 ACCTACTCGTGGGAACTGCCCACGCCACTCAATATAAATCAGAGCTTCAGGTCC
7518962 TTTTTTTTTT
Statistics
Matches: 101, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
59 34 0.34
60 67 0.66
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.23
Consensus pattern (60 bp):
ACCTACTCGTGGGAACTGCCCACGCCACTCAATATAAATCAGAGCTTCAGGTCCCCCTTT
Found at i:7519300 original size:19 final size:18
Alignment explanation
Indices: 7519274--7519314 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
7519264 ACACAAGCTT
*
7519274 GCAAGGTATTATTTTGAA
1 GCAAGGTATGATTTTGAA
7519292 GCNAAGGTATGATTTTGAA
1 GC-AAGGTATGATTTTGAA
7519311 GCAA
1 GCAA
7519315 AAGCCATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.32
Consensus pattern (18 bp):
GCAAGGTATGATTTTGAA
Found at i:7519735 original size:15 final size:15
Alignment explanation
Indices: 7519703--7519744 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 15
7519693 CCAGTCAGCG
7519703 TTTCTCTTCTACTTTTT
1 TTTCTCTT-T-CTTTTT
7519720 TTT-TCTTTCTTTTT
1 TTTCTCTTTCTTTTT
7519734 TTTCTCTTTCT
1 TTTCTCTTTCT
7519745 ACTTTTTCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 9 0.38
15 8 0.33
16 4 0.17
17 3 0.12
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTCTCTTTCTTTTT
Found at i:7519787 original size:62 final size:64
Alignment explanation
Indices: 7519721--7519938 Score: 209
Period size: 62 Copynumber: 3.4 Consensus size: 64
7519711 CTACTTTTTT
*
7519721 TTTCTTTCTTTTTTTTC-TCTTTCTACTTTTTC-CC-CTAGCACCGTCGCTCCCCCTCTCTCTTC
1 TTTCTTTCTTTTTTTTCTTCTTTCTACTTTTTCTCCTCTGGCA-CGTCGCTCCCCCTCTCTCTTC
* * *
7519783 TTTC-TTCCTTTTTTTCTCTCTTT-T-CTTTTTCTCCTCTGGCACGCCGCTCCCCCTCTCCCTTT
1 TTTCTTTCTTTTTTTTCT-TCTTTCTACTTTTTCTCCTCTGGCACGTCGCTCCCCCTCTCTC-TT
7519845 C
64 C
* * * * *
7519846 TTTTTTTCTTCTTCTTTCTTCTCTCTA-TTCTTTCTCCTTTGGCACGTCGATGCTCTCCCTCTCT
1 TTTCTTTCTT-TTTTTTCTTCTTTCTACTT-TTTCTCCTCTGGCACGTC---GCTCCCCCTCTCT
7519910 CTTCC
61 CTT-C
*
7519915 TTTC-TTCTTCTTTTTCTTCTTTCT
1 TTTCTTTCTTTTTTTTCTTCTTTCT
7519939 TCTCTCTTTT
Statistics
Matches: 126, Mismatches: 16, Indels: 23
0.76 0.10 0.14
Matches are distributed among these distances:
61 18 0.14
62 23 0.18
63 16 0.13
64 8 0.06
65 10 0.08
66 16 0.13
67 12 0.10
68 7 0.06
69 16 0.13
ACGTcount: A:0.03, C:0.37, G:0.06, T:0.55
Consensus pattern (64 bp):
TTTCTTTCTTTTTTTTCTTCTTTCTACTTTTTCTCCTCTGGCACGTCGCTCCCCCTCTCTCTTC
Found at i:7519924 original size:68 final size:65
Alignment explanation
Indices: 7519765--7519934 Score: 188
Period size: 68 Copynumber: 2.6 Consensus size: 65
7519755 CTAGCACCGT
*
7519765 CGCTCCCCCTCTCTCTT-CTTTCTTC--CTTTTT-TTCTCTCTTTTCTTTTTCTCCTCTGGCACG
1 CGCTCCCCCTCTCTCTTCCTTTCTTCTTCTTTTTCTTCTCTCTATTC-TTTTCTCCTCTGGCACG
7519826 C
65 C
* * * *
7519827 CGCTCCCCCTCTCCCTTTCTTTTTTTCTTCTTCTTTCTTCTCTCTATTC-TTTCTCCTTTGGCAC
1 CGCTCCCCCTCTCTC-TTCCTTTCTTCTTCTT-TTTCTTCTCTCTATTCTTTTCTCCTCTGGCAC
7519891 GTC
64 G-C
* *
7519894 GATGCTCTCCCTCTCTCTTCCTTTCTTCTTCTTTTTCTTCT
1 --CGCTCCCCCTCTCTCTTCCTTTCTTCTTCTTTTTCTTCT
7519935 TTCTTCTCTC
Statistics
Matches: 89, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
62 14 0.16
63 2 0.02
64 6 0.07
66 18 0.20
67 12 0.13
68 25 0.28
69 12 0.13
ACGTcount: A:0.02, C:0.39, G:0.06, T:0.53
Consensus pattern (65 bp):
CGCTCCCCCTCTCTCTTCCTTTCTTCTTCTTTTTCTTCTCTCTATTCTTTTCTCCTCTGGCACGC
Found at i:7519938 original size:19 final size:21
Alignment explanation
Indices: 7519909--7519949 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
7519899 TCTCCCTCTC
7519909 TCTTCCTTTCTTCT-TCTTTT
1 TCTTCCTTTCTTCTCTCTTTT
7519929 TCTT-CTTTCTTCTCTCTTTT
1 TCTTCCTTTCTTCTCTCTTTT
7519949 T
1 T
7519950 TTTTTGTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (21 bp):
TCTTCCTTTCTTCTCTCTTTT
Found at i:7519959 original size:24 final size:22
Alignment explanation
Indices: 7519916--7519961 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
7519906 CTCTCTTCCT
7519916 TTCTTCTTCTTTTTCTTCTTTC
1 TTCTTCTTCTTTTTCTTCTTTC
* *
7519938 TTCTCTCTTTTTTTTTTGTCTTTC
1 TTCT-TCTTCTTTTTCT-TCTTTC
7519962 CTTAACTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 10 0.50
24 6 0.30
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (22 bp):
TTCTTCTTCTTTTTCTTCTTTC
Found at i:7526506 original size:60 final size:60
Alignment explanation
Indices: 7526349--7526512 Score: 197
Period size: 60 Copynumber: 2.7 Consensus size: 60
7526339 CTCCTCGTGA
* *
7526349 GAACTGCCCACGTCA-CTATATATAAATCGGGGCTTCAAGG-CCTCATTTACCTACTCATGG
1 GAACTGCCCACGCCACCCA-ATATAAATCGGGGCTTC-AGGTCCTCATTTACCTACTCATGG
* * * * * *
7526409 GAACTGCCCACGCCACCCAATATAAATAGGAGTTTCAGGTCTTCCTTTACTTACTCATGG
1 GAACTGCCCACGCCACCCAATATAAATCGGGGCTTCAGGTCCTCATTTACCTACTCATGG
* * *
7526469 GAACTGCCTATGCCACCCAATATAGATCGGGGCTTCAGGTCCTC
1 GAACTGCCCACGCCACCCAATATAAATCGGGGCTTCAGGTCCTC
7526513 TCTTTTTTTT
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
59 3 0.03
60 82 0.94
61 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (60 bp):
GAACTGCCCACGCCACCCAATATAAATCGGGGCTTCAGGTCCTCATTTACCTACTCATGG
Found at i:7527192 original size:10 final size:10
Alignment explanation
Indices: 7527177--7527209 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
7527167 ACTCTTTTTA
7527177 TTTATT-TAT
1 TTTATTATAT
7527186 TTATATTATAT
1 TT-TATTATAT
7527197 TTTATTATAT
1 TTTATTATAT
7527207 TTT
1 TTT
7527210 TTCCTTACTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 2 0.09
10 15 0.68
11 5 0.23
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTATTATAT
Found at i:7527344 original size:12 final size:12
Alignment explanation
Indices: 7527313--7527351 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
7527303 GTCGCTCTCC
*
7527313 CTCTCTCTTCCTT
1 CTCTCT-TTTCTT
*
7527326 CTTTCTTTTCTT
1 CTCTCTTTTCTT
7527338 CTCTCTTTTCTT
1 CTCTCTTTTCTT
7527350 CT
1 CT
7527352 TCTCCTCCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 18 0.78
13 5 0.22
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (12 bp):
CTCTCTTTTCTT
Found at i:7527397 original size:62 final size:59
Alignment explanation
Indices: 7527271--7527406 Score: 164
Period size: 62 Copynumber: 2.2 Consensus size: 59
7527261 TTTTTTCTTC
* * *
7527271 TTTCTTCTCTCTCCTTTTTCTTCTCCGGCACTGTCGCTCTCCCTCTCTCTTCCTTCTTTCT
1 TTTCTTCTCTCT--TTTTTCTTCTCCGCCACTGTCGCTCCCCCTCTCCCTTCCTTCTTTCT
* * *
7527332 TTTCTTCTCTCTTTTCTTCTTCTCCTCCAGCATGTCGCTCCCCCTCTCCCTTTCTTCTTTTT
1 TTTCTTCTCTCTTTT-TTCTTCTCCGCCA-C-TGTCGCTCCCCCTCTCCCTTCCTTCTTTCT
*
7527394 TTTCTTCTTTCTT
1 TTTCTTCTCTCTT
7527407 CTCTCTCCTC
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
59 3 0.05
60 11 0.17
61 13 0.20
62 38 0.58
ACGTcount: A:0.02, C:0.39, G:0.05, T:0.54
Consensus pattern (59 bp):
TTTCTTCTCTCTTTTTTCTTCTCCGCCACTGTCGCTCCCCCTCTCCCTTCCTTCTTTCT
Found at i:7527473 original size:12 final size:13
Alignment explanation
Indices: 7527458--7527506 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
7527448 TTTTTTCCTC
7527458 TCTTC-TTCTTTT
1 TCTTCTTTCTTTT
*
7527470 TCTTCTTTC-TTC
1 TCTTCTTTCTTTT
*
7527482 TC-TCTTTTTTTT
1 TCTTCTTTCTTTT
7527494 TCTATCTTTCTTT
1 TCT-TCTTTCTTT
7527507 CACTTTTGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
11 5 0.17
12 13 0.45
13 3 0.10
14 8 0.28
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (13 bp):
TCTTCTTTCTTTT
Found at i:7527478 original size:24 final size:23
Alignment explanation
Indices: 7527466--7527513 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
7527456 TCTCTTCTTC
7527466 TTTTTCTTCTTTCTTCTCTCTTTT
1 TTTTTCTTCTTTC-TCTCTCTTTT
* *
7527490 TTTTTCTATCTTTCTTTCACTTTT
1 TTTTTCT-TCTTTCTCTCTCTTTT
7527514 GGCCGACCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTTCTTCTTTCTCTCTCTTTT
Found at i:7527496 original size:21 final size:19
Alignment explanation
Indices: 7527448--7527501 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
7527438 GCTCTCCCTC
* *
7527448 TTTTTTCCTCTCTTCTTCT
1 TTTTTTTCTATCTTCTTCT
* *
7527467 TTTTCTTCTTTCTTCTCTCTT
1 TTTTTTTCTATCTTCT-TC-T
7527488 TTTTTTTCTATCTT
1 TTTTTTTCTATCTT
7527502 TCTTTCACTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 13 0.46
20 2 0.07
21 13 0.46
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTTTCTATCTTCTTCT
Found at i:7527532 original size:29 final size:29
Alignment explanation
Indices: 7527500--7527563 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
7527490 TTTTTCTATC
* *
7527500 TTTCTTTCACTTTTGGCCGACCCCCCCTT
1 TTTCTTTCACTCTTGACCGACCCCCCCTT
** * *
7527529 TTTCTTTTTCTCTTGACCGGCCCCCCTTT
1 TTTCTTTCACTCTTGACCGACCCCCCCTT
7527558 TTTCTT
1 TTTCTT
7527564 CTCCTTCTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.05, C:0.38, G:0.09, T:0.48
Consensus pattern (29 bp):
TTTCTTTCACTCTTGACCGACCCCCCCTT
Found at i:7531000 original size:47 final size:47
Alignment explanation
Indices: 7530948--7531042 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
7530938 AATAAAATAA
*
7530948 AATCATGTTTGATTAAAAATTTACTATAATTAAAATATACTCCTTAC
1 AATCATGTTTGATTAAAAATTTACGATAATTAAAATATACTCCTTAC
7530995 AATCATGTTTGATTAAAAATTTACGATAATTAAAATATACTCCTTAC
1 AATCATGTTTGATTAAAAATTTACGATAATTAAAATATACTCCTTAC
7531042 A
1 A
7531043 TCACATTTAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.43, C:0.13, G:0.05, T:0.39
Consensus pattern (47 bp):
AATCATGTTTGATTAAAAATTTACGATAATTAAAATATACTCCTTAC
Found at i:7533954 original size:23 final size:22
Alignment explanation
Indices: 7533922--7533966 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
7533912 AATTTTCAAC
*
7533922 AATTATTTTTTTTATATATATAA
1 AATTAATTTTTTTA-ATATATAA
*
7533945 AATTAATTTTTTTAATGTATAA
1 AATTAATTTTTTTAATATATAA
7533967 TATCTACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
AATTAATTTTTTTAATATATAA
Found at i:7534208 original size:12 final size:12
Alignment explanation
Indices: 7534191--7534239 Score: 62
Period size: 12 Copynumber: 3.8 Consensus size: 12
7534181 AACTTGATTA
7534191 TAAAAATTTAAT
1 TAAAAATTTAAT
7534203 TAAAAATTTTACATCT
1 TAAAAA-TTTA-A--T
7534219 TAAAAATTTAAT
1 TAAAAATTTAAT
7534231 TAAAAATTT
1 TAAAAATTT
7534240 TACATCTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 16 0.48
13 4 0.12
14 2 0.06
15 4 0.12
16 7 0.21
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (12 bp):
TAAAAATTTAAT
Found at i:7534222 original size:28 final size:28
Alignment explanation
Indices: 7534191--7534257 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
7534181 AACTTGATTA
7534191 TAAAAATTTAATTAAAAATTTTACATCT
1 TAAAAATTTAATTAAAAATTTTACATCT
7534219 TAAAAATTTAATTAAAAATTTTACATCT
1 TAAAAATTTAATTAAAAATTTTACATCT
7534247 TAAAAATTTAA
1 TAAAAATTTAA
7534258 AAAAATAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (28 bp):
TAAAAATTTAATTAAAAATTTTACATCT
Found at i:7534223 original size:16 final size:16
Alignment explanation
Indices: 7534202--7534255 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
7534192 AAAAATTTAA
7534202 TTAAAAATTTTACATC
1 TTAAAAATTTTACATC
7534218 TTAAAAA-TTTA-A--
1 TTAAAAATTTTACATC
7534230 TTAAAAATTTTACATC
1 TTAAAAATTTTACATC
7534246 TTAAAAATTT
1 TTAAAAATTT
7534256 AAAAAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
12 7 0.21
13 4 0.12
14 2 0.06
15 4 0.12
16 17 0.50
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAAATTTTACATC
Found at i:7534453 original size:2 final size:2
Alignment explanation
Indices: 7534446--7534476 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7534436 ACAAAAAGGA
*
7534446 TC TC TC TC TC TC TT TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
7534477 AATCACCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:7536139 original size:2 final size:2
Alignment explanation
Indices: 7536134--7536168 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
7536124 TATATATATA
* *
7536134 TG TG TG TG TG TG TG TG TG TG TG TG CG CG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
7536169 ATATTGCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.06, G:0.49, T:0.46
Consensus pattern (2 bp):
TG
Found at i:7538226 original size:18 final size:18
Alignment explanation
Indices: 7538186--7538220 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7538176 ATATCATTAT
7538186 ATCATATCAACATATCAC
1 ATCATATCAACATATCAC
*
7538204 ATCATATCAGCATATCA
1 ATCATATCAACATATCA
7538221 TGTCATGATT
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:0.43, C:0.26, G:0.03, T:0.29
Consensus pattern (18 bp):
ATCATATCAACATATCAC
Found at i:7538416 original size:204 final size:204
Alignment explanation
Indices: 7538140--7538550 Score: 750
Period size: 204 Copynumber: 2.0 Consensus size: 204
7538130 GACGTTAATC
*
7538140 TAATGTTGATATGAAAAGTAAAATTATCATATAGATATATCATTATATCATATCAACATATCACA
1 TAATGTTGATATGAAAAGTAAAATTATCACATAGATATATCATTATATCATATCAACATATCACA
*
7538205 TCATATCAGCATATCATGTCATGATTCATTATGATATATTAGCATGTCATGTTAGCTTCATATGA
66 TCATATCAGCATATCATGTCATGATTCATTATGACATATTAGCATGTCATGTTAGCTTCATATGA
*
7538270 AATAAAATTATAAGTGACTTTTTTACTAAATCACTCATTAATTATAAGAACTTATTTGATTCAAA
131 AATAAAATTATAAGTGACTTTTTTACTAAATCACCCATTAATTATAAGAACTTATTTGATTCAAA
7538335 ATGAAAGTA
196 ATGAAAGTA
* * * *
7538344 TAATGTTGATATGAAAGGTAAAATTGTCACATAGATATATCATTGTATCCTATCAACATATCACA
1 TAATGTTGATATGAAAAGTAAAATTATCACATAGATATATCATTATATCATATCAACATATCACA
7538409 TCATATCAGCATATCATGTCATGATTCATTATGACATATTAGCATGTCATGTTAGCTTCATATGA
66 TCATATCAGCATATCATGTCATGATTCATTATGACATATTAGCATGTCATGTTAGCTTCATATGA
*
7538474 AATAAAATTATAAGTTACTTTTTTACTAAATCACCCATTAATTATAAGAACTTATTTGATTCAAA
131 AATAAAATTATAAGTGACTTTTTTACTAAATCACCCATTAATTATAAGAACTTATTTGATTCAAA
7538539 ATGAAAGTA
196 ATGAAAGTA
7538548 TAA
1 TAA
7538551 GAATTTGATT
Statistics
Matches: 199, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
204 199 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (204 bp):
TAATGTTGATATGAAAAGTAAAATTATCACATAGATATATCATTATATCATATCAACATATCACA
TCATATCAGCATATCATGTCATGATTCATTATGACATATTAGCATGTCATGTTAGCTTCATATGA
AATAAAATTATAAGTGACTTTTTTACTAAATCACCCATTAATTATAAGAACTTATTTGATTCAAA
ATGAAAGTA
Found at i:7541210 original size:22 final size:24
Alignment explanation
Indices: 7541185--7541231 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
7541175 TACCTTTTGT
7541185 CACTTGTTTC-CTTG-AATT-TTCA
1 CACTT-TTTCTCTTGAAATTCTTCA
7541207 CACTTTTTCTCTTGAAATTCTTCA
1 CACTTTTTCTCTTGAAATTCTTCA
7541231 C
1 C
7541232 CTAGGGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.18
22 9 0.41
23 4 0.18
24 5 0.23
ACGTcount: A:0.19, C:0.26, G:0.06, T:0.49
Consensus pattern (24 bp):
CACTTTTTCTCTTGAAATTCTTCA
Found at i:7544026 original size:21 final size:23
Alignment explanation
Indices: 7544001--7544042 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
7543991 GTAAATGAAA
*
7544001 TTTTTAATTATT-TT-AAATTCC
1 TTTTTAACTATTATTGAAATTCC
7544022 TTTTTAACTATTATTGAAATT
1 TTTTTAACTATTATTGAAATT
7544043 AATTTTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 2 0.11
23 5 0.28
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTTAACTATTATTGAAATTCC
Found at i:7544048 original size:23 final size:21
Alignment explanation
Indices: 7543999--7544049 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
7543989 AAGTAAATGA
*
7543999 AATTTTTAATTATTTTAAATT
1 AATTTTTAACTATTTTAAATT
**
7544020 CCTTTTTAACTATTATTGAAATT
1 AATTTTTAACTATT-TT-AAATT
7544043 AATTTTT
1 AATTTTT
7544050 CATTTCGAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 11 0.48
22 2 0.09
23 10 0.43
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (21 bp):
AATTTTTAACTATTTTAAATT
Found at i:7550780 original size:30 final size:30
Alignment explanation
Indices: 7550717--7550787 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 30
7550707 AAAAATTTAA
*
7550717 ATAAATTGTTAT-TTTTTATTATATATAAT
1 ATAAATTCTTATATTTTTATTATATATAAT
* * *
7550746 -TAAATTTTTATATTTTTATT-TTTAATTAT
1 ATAAATTCTTATATTTTTATTATAT-ATAAT
7550775 ATAAATTCTTATA
1 ATAAATTCTTATA
7550788 ATTAATAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 12 0.34
29 12 0.34
30 11 0.31
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (30 bp):
ATAAATTCTTATATTTTTATTATATATAAT
Found at i:7551005 original size:24 final size:22
Alignment explanation
Indices: 7550972--7551026 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
7550962 TATTTTAATG
*
7550972 AATAATAATTAATTATTAA-TTAA
1 AATAAAAATTAA-T-TTAATTTAA
*
7550995 ATATAAAAATTTATTTAATTTAA
1 A-ATAAAAATTAATTTAATTTAA
7551018 AATAAAAAT
1 AATAAAAAT
7551027 AAAATATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 12 0.43
23 7 0.25
24 9 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAAAAATTAATTTAATTTAA
Found at i:7558444 original size:19 final size:19
Alignment explanation
Indices: 7558420--7558464 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
7558410 CTAAGCCTTG
*
7558420 CGGGGTTTCGATCGGTATT
1 CGGGGTTTCGATCGGCATT
7558439 CGGGGTTTCGATCGGCATT
1 CGGGGTTTCGATCGGCATT
7558458 CGGGGTT
1 CGGGGTT
7558465 ATGAGTGCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.09, C:0.18, G:0.40, T:0.33
Consensus pattern (19 bp):
CGGGGTTTCGATCGGCATT
Found at i:7558594 original size:15 final size:15
Alignment explanation
Indices: 7558588--7558627 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
7558578 AAGCTTTGGA
7558588 TTTTAAAGTTTTCGG
1 TTTTAAAGTTTTCGG
7558603 TTTTAAAGTTTTCGG
1 TTTTAAAGTTTTCGG
7558618 TTTTAAAGTT
1 TTTTAAAGTT
7558628 GTTTTAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.23, C:0.05, G:0.17, T:0.55
Consensus pattern (15 bp):
TTTTAAAGTTTTCGG
Found at i:7560672 original size:19 final size:19
Alignment explanation
Indices: 7560648--7560685 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
7560638 CCATTTGACT
7560648 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
7560667 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
7560686 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:7599895 original size:19 final size:19
Alignment explanation
Indices: 7599871--7599908 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7599861 CTGCCAAACC
*
7599871 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
7599890 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
7599909 AGTCAAGTGG
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:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:7601813 original size:16 final size:15
Alignment explanation
Indices: 7601792--7601843 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
7601782 AATAAACAAT
7601792 AAAATACATAATAAA
1 AAAATACATAATAAA
* *
7601807 AATAATAGGAAAATAAA
1 AA-AATA-CATAATAAA
*
7601824 AAATATATATAATAAA
1 AAA-ATACATAATAAA
7601840 AAAA
1 AAAA
7601844 AAAAGAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 3 0.10
16 15 0.50
17 12 0.40
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (15 bp):
AAAATACATAATAAA
Found at i:7601828 original size:24 final size:22
Alignment explanation
Indices: 7601792--7601853 Score: 54
Period size: 24 Copynumber: 2.8 Consensus size: 22
7601782 AATAAACAAT
* *
7601792 AAAATACATAATAAAAATAATA
1 AAAATAAAAAATAAAAATAATA
* *
7601814 GGAAAATAAAAAATATATATAATA
1 --AAAATAAAAAATAAAAATAATA
*
7601838 AAAA-AAAAAAGAAAAA
1 AAAATAAAAAATAAAAA
7601854 AAAAAGAGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 9 0.29
22 4 0.13
24 18 0.58
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.18
Consensus pattern (22 bp):
AAAATAAAAAATAAAAATAATA
Found at i:7601844 original size:36 final size:33
Alignment explanation
Indices: 7601781--7601858 Score: 79
Period size: 36 Copynumber: 2.3 Consensus size: 33
7601771 GGAATAAAAT
* *
7601781 AAATAAACAATAAAATACATAATAAAAATAATAGGA
1 AAATAAAAAATAAAATACATAA-AAAAA-AA-AAGA
*
7601817 AAATAAAAAATATATATA-ATAAAAAAAAAAAGA
1 AAATAAAAAATA-AAATACATAAAAAAAAAAAGA
7601850 AAA-AAAAAA
1 AAATAAAAAA
7601859 GAGAAAAGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
32 6 0.16
33 6 0.16
34 2 0.05
35 5 0.13
36 15 0.39
37 4 0.11
ACGTcount: A:0.77, C:0.03, G:0.04, T:0.17
Consensus pattern (33 bp):
AAATAAAAAATAAAATACATAAAAAAAAAAAGA
Found at i:7602086 original size:34 final size:34
Alignment explanation
Indices: 7602042--7602129 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 34
7602032 AACTAAAGAG
7602042 AAAAGAAAGAAGGTCGGCTGCAGGAAAAGAAAAA
1 AAAAGAAAGAAGGTCGGCTGCAGGAAAAGAAAAA
* * * * * *
7602076 GAGAGAAAGAAGGCCGGTTGGAGGAGAAGAAAAA
1 AAAAGAAAGAAGGTCGGCTGCAGGAAAAGAAAAA
7602110 AAAAG-AAGAAAGGTCGGCTG
1 AAAAGAAAG-AAGGTCGGCTG
7602130 AATGAGGAGA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
33 3 0.07
34 40 0.93
ACGTcount: A:0.50, C:0.08, G:0.35, T:0.07
Consensus pattern (34 bp):
AAAAGAAAGAAGGTCGGCTGCAGGAAAAGAAAAA
Found at i:7602197 original size:18 final size:19
Alignment explanation
Indices: 7602159--7602202 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
7602149 GAAGAGAGAG
* *
7602159 AGAAAGAAATGGGAAAGAA
1 AGAAAAAAATGGGAAAAAA
7602178 AGAAAAAAAT-GGAAAAAA
1 AGAAAAAAATGGGAAAAAA
7602196 AGTAAAA
1 AG-AAAA
7602203 TAATAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (19 bp):
AGAAAAAAATGGGAAAAAA
Found at i:7604563 original size:17 final size:17
Alignment explanation
Indices: 7604524--7604564 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
7604514 TATAGTCATT
*
7604524 TATACTTCGTAAAGGTT
1 TATACTTCGTAAAGGTA
7604541 TATACTTCGT-AAGGTA
1 TATACTTCGTAAAGGTA
7604557 TAGTACTT
1 TA-TACTT
7604565 TATTTATGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.41
Consensus pattern (17 bp):
TATACTTCGTAAAGGTA
Found at i:7608775 original size:13 final size:13
Alignment explanation
Indices: 7608757--7608781 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7608747 AGGAAAATTG
7608757 TGATTTTATAAAA
1 TGATTTTATAAAA
7608770 TGATTTTATAAA
1 TGATTTTATAAA
7608782 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:7609628 original size:28 final size:29
Alignment explanation
Indices: 7609587--7609646 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
7609577 GTCTATGGGC
* *
7609587 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCACTTTTAGGGGGCAAAAATGT
* *
7609615 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCACTTTTA-GGGGGCAAAAATGT
7609645 AA
1 AA
7609647 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.38
Consensus pattern (29 bp):
AATTTTTCACTTTTAGGGGGCAAAAATGT
Found at i:7610810 original size:13 final size:13
Alignment explanation
Indices: 7610792--7610816 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7610782 AGAGAAATTG
7610792 TGATTTTATAAAA
1 TGATTTTATAAAA
7610805 TGATTTTATAAA
1 TGATTTTATAAA
7610817 TTTTCTGGAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:7613272 original size:28 final size:28
Alignment explanation
Indices: 7613185--7613256 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 28
7613175 CTAATAACAA
** *
7613185 GAATACTTTTAATTCACTAAGAGTGGAT
1 GAATACTTTTAACCCACTAGGAGTGGAT
7613213 GAATACTTTTAACCCACTAGGAGTGGAT
1 GAATACTTTTAACCCACTAGGAGTGGAT
7613241 GAATACTTTTAACCCA
1 GAATACTTTTAACCCA
7613257 TCATGAGTAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (28 bp):
GAATACTTTTAACCCACTAGGAGTGGAT
Found at i:7614688 original size:156 final size:155
Alignment explanation
Indices: 7614376--7614688 Score: 414
Period size: 156 Copynumber: 2.0 Consensus size: 155
7614366 AAATTAATTA
* * * * *
7614376 TAAGGTTATCATCAGCTAACGTTGGGATTGAATTTCTTACATTTTTGAAACGTATTTAGAGTGAT
1 TAAGGTCATCATCAGCTAAAGTTGGGATTGAATCTCTTACATTTTTGAAACATATTCAGAGTGAT
* * * * *
7614441 ATATTTGATCCATACATCTACCATGTAGACCTTTTAGATATTTTATTATTTTAATCGATGCATCG
66 ATAGTGGATCCATACATCTACCATGTAGACCATTTAGATATTTTATTATTTTAATCAATGCATCA
7614506 ACTAGATGATCAAATGTGTGCTTAT
131 ACTAGATGATCAAATGTGTGCTTAT
* *
7614531 TAAGGTCATCATTAGCTAAAGTTGGGATTGAATCTCTTATATTTTTGAAACATATTCAGAGTGAT
1 TAAGGTCATCATCAGCTAAAGTTGGGATTGAATCTCTTACATTTTTGAAACATATTCAGAGTGAT
* * * *
7614596 ATACGTGGATTCATACAT-TCACCATGT-GAACCATTTATATATTTTATTTTTTTAATCAATGTA
66 ATA-GTGGATCCATACATCT-ACCATGTAG-ACCATTTAGATATTTTATTATTTTAATCAATGCA
* * *
7614659 TTAACTAGATGATCATATGTGTGTTTAT
128 TCAACTAGATGATCAAATGTGTGCTTAT
7614687 TA
1 TA
7614689 TCAAATTGCA
Statistics
Matches: 136, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
155 63 0.46
156 73 0.54
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (155 bp):
TAAGGTCATCATCAGCTAAAGTTGGGATTGAATCTCTTACATTTTTGAAACATATTCAGAGTGAT
ATAGTGGATCCATACATCTACCATGTAGACCATTTAGATATTTTATTATTTTAATCAATGCATCA
ACTAGATGATCAAATGTGTGCTTAT
Found at i:7615188 original size:142 final size:142
Alignment explanation
Indices: 7614921--7615177 Score: 381
Period size: 142 Copynumber: 1.8 Consensus size: 142
7614911 CACTTTGAAA
** * *
7614921 TGATGGCAAGGCCATTACTTGTGAAAACTAAACTCTCCATTTTTGCTTAAGGGCATACAATTTTG
1 TGATGGCAAGGCCATTACTTACGAAAACTAAACTCTCAATTTTGGCTTAAGGGCATACAATTTTG
* * *
7614986 CATGCAACAACACTTTTATGAATCACGCCAATGGGTTATCATAAATTCTCTCCTATACAATCAGT
66 CATACAACAACACTTTTATGAATCACGCAAATGAGTTATCATAAATTCTCTCCTATACAATCAGT
7615051 AACACTTCCAAC
131 AACACTTCCAAC
* * * *
7615063 TGATTGCAATGCCATTACTTACGAAAACTAAACTCTCAATTTTGGCTTAGGGGCATGCAATTTTG
1 TGATGGCAAGGCCATTACTTACGAAAACTAAACTCTCAATTTTGGCTTAAGGGCATACAATTTTG
**
7615128 CATACAACAACA-TTTGTATGAATCGGGCAAATGAGTTATCATAAATTCTC
66 CATACAACAACACTTT-TATGAATCACGCAAATGAGTTATCATAAATTCTC
7615178 CTTTATACAA
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
141 3 0.03
142 98 0.97
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (142 bp):
TGATGGCAAGGCCATTACTTACGAAAACTAAACTCTCAATTTTGGCTTAAGGGCATACAATTTTG
CATACAACAACACTTTTATGAATCACGCAAATGAGTTATCATAAATTCTCTCCTATACAATCAGT
AACACTTCCAAC
Found at i:7615509 original size:19 final size:19
Alignment explanation
Indices: 7615485--7615523 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
7615475 CTAGTTTTGA
7615485 TCTTCACACAAAACAATGT
1 TCTTCACACAAAACAATGT
*
7615504 TCTTCACACAAATCAATGT
1 TCTTCACACAAAACAATGT
7615523 T
1 T
7615524 AACTTGAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (19 bp):
TCTTCACACAAAACAATGT
Found at i:7624660 original size:22 final size:22
Alignment explanation
Indices: 7624632--7624676 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7624622 CTACAGAGAA
*
7624632 AATATTAAAGATTGAGCCAAGT
1 AATATTAAAGACTGAGCCAAGT
* *
7624654 AATATTAGAGACTGTGCCAAGT
1 AATATTAAAGACTGAGCCAAGT
7624676 A
1 A
7624677 TTACCAAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (22 bp):
AATATTAAAGACTGAGCCAAGT
Found at i:7635092 original size:33 final size:33
Alignment explanation
Indices: 7635055--7635135 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 33
7635045 ACATGACAGC
**
7635055 AAAAGCATGTTGCCCACAGTAAAACATGAAACA
1 AAAAGCATGTTGCCCACAACAAAACATGAAACA
* * *
7635088 AAAAGCATGTTGCCCGCAACAAAACATGAATCC
1 AAAAGCATGTTGCCCACAACAAAACATGAAACA
*
7635121 TAAAGCATGTTGCCC
1 AAAAGCATGTTGCCC
7635136 CCCAGTGTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.42, C:0.25, G:0.16, T:0.17
Consensus pattern (33 bp):
AAAAGCATGTTGCCCACAACAAAACATGAAACA
Found at i:7642264 original size:2 final size:2
Alignment explanation
Indices: 7642250--7642290 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
7642240 GTAAGGCAAG
*
7642250 AT AT AT A- AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7642290 A
1 A
7642291 ACCATAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:7642744 original size:26 final size:27
Alignment explanation
Indices: 7642690--7642745 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
7642680 TTCTCTATCA
7642690 TGAAAGCCATTAAGAAAAATGACACCT
1 TGAAAGCCATTAAGAAAAATGACACCT
* *
7642717 TGAAAGCCATTATGAAAAA-GACATCT
1 TGAAAGCCATTAAGAAAAATGACACCT
7642743 TGA
1 TGA
7642746 GTTGATTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.21
Consensus pattern (27 bp):
TGAAAGCCATTAAGAAAAATGACACCT
Found at i:7645214 original size:3 final size:3
Alignment explanation
Indices: 7645208--7645232 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7645198 CATCAACATC
7645208 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
7645233 GCGTGATGAA
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:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:7648996 original size:22 final size:24
Alignment explanation
Indices: 7648971--7649024 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
7648961 AATTTAATTA
7648971 AAATATTAATAA-TTA-ATAATGT
1 AAATATTAATAATTTATATAATGT
* *
7648993 AAATATTAATAATTTATTTAATTT
1 AAATATTAATAATTTATATAATGT
7649017 AAATATTA
1 AAATATTA
7649025 TTATGATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 12 0.43
23 3 0.11
24 13 0.46
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
AAATATTAATAATTTATATAATGT
Found at i:7649153 original size:40 final size:40
Alignment explanation
Indices: 7649109--7649202 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
7649099 AATAATTATA
* *
7649109 GTAATTTAAATATTTATA-ATTAAATATTAATATTTTATTT
1 GTAATTTAAATATTTATATATAAAATATTAATATTTT-GTT
*
7649149 GTAATTTAATTATTTATATTATAAAATATTAATATTTTGTT
1 GTAATTTAAATATTTATA-TATAAAATATTAATATTTTGTT
7649190 -TAATTTAAATATT
1 GTAATTTAAATATT
7649203 ATTATGATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 29 0.60
41 2 0.04
42 17 0.35
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (40 bp):
GTAATTTAAATATTTATATATAAAATATTAATATTTTGTT
Found at i:7649213 original size:40 final size:41
Alignment explanation
Indices: 7649109--7649226 Score: 127
Period size: 40 Copynumber: 2.9 Consensus size: 41
7649099 AATAATTATA
* *
7649109 GTAATTTAAATA-TTTATAATTAAATATTAATATTTTATTT
1 GTAATTTAAATATTTTATAATAAAATATTAATATTTTAGTT
* *
7649149 GTAATTTAATTATTTATATTATAAAATATTAATATTTT-GTT
1 GTAATTTAAATATTT-TATAATAAAATATTAATATTTTAGTT
* * *
7649190 -TAATTTAAATATTATTATGATAAATTATT-TTATTTTA
1 GTAATTTAAATATT-TTATAATAAAATATTAATATTTTA
7649227 TTTTATTTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
39 6 0.09
40 35 0.53
41 5 0.08
42 20 0.30
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (41 bp):
GTAATTTAAATATTTTATAATAAAATATTAATATTTTAGTT
Found at i:7649274 original size:27 final size:26
Alignment explanation
Indices: 7649234--7649286 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
7649224 TTATTTTATT
* *
7649234 TTTAAAAATTAATAATTGATTATTTA
1 TTTAAAAATTAATAATAGATAATTTA
7649260 TTTAAAATATTAATAATAGATAATTTA
1 TTTAAAA-ATTAATAATAGATAATTTA
7649287 AATATTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (26 bp):
TTTAAAAATTAATAATAGATAATTTA
Found at i:7649367 original size:68 final size:63
Alignment explanation
Indices: 7649161--7649386 Score: 186
Period size: 68 Copynumber: 3.3 Consensus size: 63
7649151 AATTTAATTA
* *
7649161 TTTATATTATAAAATATTAATATTTTGTTTAATTTAAATATTATTATGATAAATTATTTTATTTT
1 TTTAT-TTATAAAA-ATTAATATTTTATTTAATTTAAATATTATTATGATTAA-T-TTTTATTTT
7649226 AT
62 AT
* * *
7649228 TTTATTTTTAAAAATTAATAATTGATTATTT-ATTTAAAATATTAATAATAGA-TAATTTAAATA
1 TTTATTTATAAAAATTAAT-ATT--TTATTTAATTT-AAATATT-ATTAT-GATTAATTT--TTA
*
7649291 TTAATAT
58 TT-TTAT
*
7649298 TTTATTTATAATTTAATCGTTAATATTTTATTTAATTTAAATATTATTATGATTAATTTTTATTT
1 TTTATTTATAA---AA--ATTAATATTTTATTTAATTTAAATATTATTATGATTAATTTTTATTT
7649363 TAT
61 TAT
* *
7649366 TTTATTTTTTAAATATTAATA
1 TTTA-TTTATAAAAATTAATA
7649387 ATTGGTAATT
Statistics
Matches: 128, Mismatches: 14, Indels: 37
0.72 0.08 0.21
Matches are distributed among these distances:
64 6 0.05
65 6 0.05
66 11 0.09
67 11 0.09
68 20 0.16
69 20 0.16
70 17 0.13
71 10 0.08
72 13 0.10
73 6 0.05
74 3 0.02
75 5 0.04
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (63 bp):
TTTATTTATAAAAATTAATATTTTATTTAATTTAAATATTATTATGATTAATTTTTATTTTAT
Found at i:7649401 original size:139 final size:139
Alignment explanation
Indices: 7649177--7649451 Score: 419
Period size: 139 Copynumber: 2.0 Consensus size: 139
7649167 TTATAAAATA
*
7649177 TTAATATTTTGTTTAATTTAAATATTATTATGATAAATTATTTTATTTTATTTTATTTTTAAAAA
1 TTAATATTTTATTTAATTTAAATATTATTATGATAAATTATTTTATTTTATTTTATTTTTAAAAA
* * *
7649242 TTAATAATTGATTATTTATTTAAAATATTAATAATAGATAATTTAAATATTAATATTTTATTTAT
66 TTAATAATTGATAATTTATTTAAAATATTAATAATAGATAACTTAAATATTAATATTTT-TGTAT
7649307 AATTTAATCG
130 AATTTAATCG
* *
7649317 TTAATATTTTATTTAATTTAAATATTATTATGATTAA-T-TTTTATTTTATTTTATTTTTTAAAT
1 TTAATATTTTATTTAATTTAAATATTATTATGATAAATTATTTTATTTTATTTTA-TTTTTAAAA
* * * * *
7649380 ATTAATAATTGGTAATTTATTTAAAATATTAATAATTGATGACTTAATTGTTAATATTTTTGTAT
65 ATTAATAATTGATAATTTATTTAAAATATTAATAATAGATAACTTAAATATTAATATTTTTGTAT
7649445 AATTTAA
130 AATTTAA
7649452 ATGATATTAT
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
138 26 0.21
139 62 0.50
140 35 0.28
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (139 bp):
TTAATATTTTATTTAATTTAAATATTATTATGATAAATTATTTTATTTTATTTTATTTTTAAAAA
TTAATAATTGATAATTTATTTAAAATATTAATAATAGATAACTTAAATATTAATATTTTTGTATA
ATTTAATCG
Found at i:7649468 original size:139 final size:140
Alignment explanation
Indices: 7649178--7649483 Score: 397
Period size: 139 Copynumber: 2.2 Consensus size: 140
7649168 TATAAAATAT
* *
7649178 TAATATTTTGTTTAATTTAAATATTATTATGATAAATTATTTTATTTTATTTTATTTTTAAAAAT
1 TAATATCTTATTTAATTTAAATATTATTATGATAAATTATTTTATTTTATTTTATTTTTAAAAAT
* * *
7649243 TAATAATTGATTATTTATTTAAAATATTAATAATAGATAATTTAAATATTAATATTTTATTTATA
66 TAATAATTGATAATTTATTTAAAATATTAATAATAGATAACTTAAATATTAATATTTTATGTATA
*
7649308 ATTTAATCGT
131 ATTTAATCGA
* * *
7649318 TAATATTTTATTTAATTTAAATATTATTATGATTAA-T-TTTTATTTTATTTTATTTTTTAAATA
1 TAATATCTTATTTAATTTAAATATTATTATGATAAATTATTTTATTTTATTTTA-TTTTTAAAAA
* * * * *
7649381 TTAATAATTGGTAATTTATTTAAAATATTAATAATTGATGACTTAATTGTTAATATTTT-TGTAT
65 TTAATAATTGATAATTTATTTAAAATATTAATAATAGATAACTTAAATATTAATATTTTATGTAT
7649445 AATTTAAAT-GA
130 AATTT-AATCGA
* * *
7649456 TATTATGCTTATTTATTTTTAAT-TTATT
1 TAATAT-CTTATTTAATTTAAATATTATT
7649484 TTGTTTTTAA
Statistics
Matches: 147, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
138 35 0.24
139 78 0.53
140 34 0.23
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.57
Consensus pattern (140 bp):
TAATATCTTATTTAATTTAAATATTATTATGATAAATTATTTTATTTTATTTTATTTTTAAAAAT
TAATAATTGATAATTTATTTAAAATATTAATAATAGATAACTTAAATATTAATATTTTATGTATA
ATTTAATCGA
Found at i:7649530 original size:112 final size:110
Alignment explanation
Indices: 7649305--7649554 Score: 265
Period size: 112 Copynumber: 2.2 Consensus size: 110
7649295 TATTTTATTT
* * *
7649305 ATAATTTAATCGTTAATATTTTATTTAATTTAAATATTATTATGATTAATTTTTATTTTATTTTA
1 ATAACTTAATTGTTAATATTTTATTTAATTTAAATATTATTATGATTAATTTTTAATTTATTTTA
* ** *
7649370 TTTTTTAAATATTAATAATTGGTAATTTATTTAAAATATTAATAATTG
66 GTTTTTAAATAGGAATAATTGATAATTTATTT---ATATTAATAATTG
* *
7649418 ATGACTTAATTGTTAATATTTT-TGTATAATTTAAATGA-TATTATGCTTATTTATTTTTAATTT
1 ATAACTTAATTGTTAATATTTTAT-T-TAATTTAAAT-ATTATTATG---ATTAATTTTTAATTT
* *
7649481 ATTTT-GTTTTTAAATAGGAATAATTTATAATTTATTT-TATTAATCATTG
60 ATTTTAGTTTTTAAATAGGAATAATTGATAATTTATTTATATTAATAATTG
* * *
7649530 ATAATTTAAATATTAATATTTTATT
1 ATAACTTAATTGTTAATATTTTATT
7649555 AAAAGTTGGA
Statistics
Matches: 115, Mismatches: 15, Indels: 15
0.79 0.10 0.10
Matches are distributed among these distances:
112 31 0.27
113 21 0.18
114 17 0.15
115 1 0.01
116 27 0.23
117 18 0.16
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (110 bp):
ATAACTTAATTGTTAATATTTTATTTAATTTAAATATTATTATGATTAATTTTTAATTTATTTTA
GTTTTTAAATAGGAATAATTGATAATTTATTTATATTAATAATTG
Found at i:7651115 original size:19 final size:19
Alignment explanation
Indices: 7651084--7651125 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
7651074 CATTGAAACT
*
7651084 AAGAAGAATTTGAAGGATTC
1 AAGAAGAATTTGAAAGA-TC
7651104 AAGAAG-ATTTGAAAGATC
1 AAGAAGAATTTGAAAGATC
7651122 AAGA
1 AAGA
7651126 TTACAGTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 9 0.43
20 6 0.29
ACGTcount: A:0.50, C:0.05, G:0.24, T:0.21
Consensus pattern (19 bp):
AAGAAGAATTTGAAAGATC
Found at i:7652424 original size:36 final size:36
Alignment explanation
Indices: 7652322--7652460 Score: 111
Period size: 36 Copynumber: 3.9 Consensus size: 36
7652312 TTGGAAAGTT
* * ** *
7652322 AGTGTAAAGGTTAT-GGTTGATCTTG-GAAAAAGCC
1 AGTGTAAGGGTTATCGCTTGATCCCGTGAAAAAGCA
* * * * *
7652356 ATTGTATGAGTTATTGCTTGATCCCATGAAAAAGCA
1 AGTGTAAGGGTTATCGCTTGATCCCGTGAAAAAGCA
* * *
7652392 AGTGTAAGGGTTATCGCTTGATCTCGTTAAAAAGTA
1 AGTGTAAGGGTTATCGCTTGATCCCGTGAAAAAGCA
* * * *
7652428 ACTATAAGGGTTATCGTTTGATCCCGTTAAAAA
1 AGTGTAAGGGTTATCGCTTGATCCCGTGAAAAA
7652461 ATCGGTATAA
Statistics
Matches: 82, Mismatches: 21, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
34 10 0.12
35 7 0.09
36 65 0.79
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.32
Consensus pattern (36 bp):
AGTGTAAGGGTTATCGCTTGATCCCGTGAAAAAGCA
Found at i:7663009 original size:19 final size:19
Alignment explanation
Indices: 7662962--7663044 Score: 69
Period size: 19 Copynumber: 4.1 Consensus size: 19
7662952 AAAAGGGAAG
7662962 GAAAAAGAGAGAAAAGACAAGAAA
1 GAAAAAGA-A-AAAAGA-AAG--A
*
7662986 GAAAAAGAAAAAAGATAGA
1 GAAAAAGAAAAAAGAAAGA
* *
7663005 GAAAAATAAAGAAGAAAGA
1 GAAAAAGAAAAAAGAAAGA
*
7663024 GAAAAA-AGAAGAAGAAAGA
1 GAAAAAGA-AAAAAGAAAGA
7663043 GA
1 GA
7663045 GAAGGAGCAG
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
18 1 0.02
19 36 0.67
21 2 0.04
22 6 0.11
23 1 0.02
24 8 0.15
ACGTcount: A:0.72, C:0.01, G:0.24, T:0.02
Consensus pattern (19 bp):
GAAAAAGAAAAAAGAAAGA
Found at i:7663938 original size:60 final size:60
Alignment explanation
Indices: 7663843--7664016 Score: 158
Period size: 60 Copynumber: 2.9 Consensus size: 60
7663833 TTTAATTTAA
* * * *
7663843 AAAGGGAGACTTGAAGCCCCGACTTATATTGGGTGGCGTTGGTAGTTTCCACGAATAGGT
1 AAAGGGAGACTTAAAGCCCCGACTTAAATTGGGTGGCGTGGGTAGTTCCCACGAATAGGT
* * * *
7663903 AAAGGGGGACTTAAAGCCCTGATTTAAATAT-GGTGGCGTGGGTAGTTCCCACGAGTAGGT
1 AAAGGGAGACTTAAAGCCCCGACTTAAAT-TGGGTGGCGTGGGTAGTTCCCACGAATAGGT
* * * * * *
7663963 AAAAAGGAGGACCTGAAGCCCCGA-TT-CATCT-GGTGGCATGGGCAGTTCCCACGA
1 -AAAGGGA-GACTTAAAGCCCCGACTTAAAT-TGGGTGGCGTGGGTAGTTCCCACGA
7664017 GTAGTTAATG
Statistics
Matches: 94, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
60 74 0.79
61 8 0.09
62 12 0.13
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (60 bp):
AAAGGGAGACTTAAAGCCCCGACTTAAATTGGGTGGCGTGGGTAGTTCCCACGAATAGGT
Done.