Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 99 of 255
Found at i:30851549 original size:22 final size:22
Alignment explanation
Indices: 30851524--30851583 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
30851514 ATAAGTTTGG
*
30851524 CACATAGCCATAATCAGGTTGA
1 CACAAAGCCATAATCAGGTTGA
* * *
30851546 CACAGAGCCAT-ATGTAGGTTGG
1 CACAAAGCCATAAT-CAGGTTGA
30851568 CACAAAGCCATAATCA
1 CACAAAGCCATAATCA
30851584 AAATAATTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 2 0.06
22 27 0.87
23 2 0.06
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (22 bp):
CACAAAGCCATAATCAGGTTGA
Found at i:30852020 original size:27 final size:27
Alignment explanation
Indices: 30851972--30852999 Score: 1289
Period size: 27 Copynumber: 38.2 Consensus size: 27
30851962 GGACAAAATG
* * ** * *
30851972 GTAATTTTACCCCACAAAGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30851999 GTAATACTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30852026 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30852053 GTAATTCTATCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30852080 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30852107 GTAATTCTACCCTACA-GGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30852133 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30852160 GTAATTCTATCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30852187 ATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30852214 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
30852241 GTATTTCTACCCTAGAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
30852268 GTAATTCTATCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30852295 GTAATTCTACCCTACA-GGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30852321 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
30852348 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
** *
30852375 GTAATTCTACCCTACAAAGATATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30852402 ATAATTCTACCCTTCAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30852429 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
30852456 GTAATTGTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
30852483 GTAATTCTACCTTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
30852510 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
**
30852536 GATAATTCTA-CCTGACAGGGGTATTTTG
1 G-TAATTCTACCCT-ACAGGGGTATTTCA
* *
30852564 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30852591 GTAATTCTATCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30852618 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30852645 GTATTTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30852672 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30852699 GTAATTCTACCTTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
**
30852725 GATAATTCTACCCTACAAAGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
30852753 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * **
30852780 GTATTTCTACCTTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30852807 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30852834 GTAATTCTACCTTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30852861 GTAATTCTACCCTACAAGGGTA-TTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
30852887 GTAATTCTAACCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30852914 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
30852941 GTATTTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* **
30852968 GTAATTTTA-CAAATCA-GGGTATTTCA
1 GTAATTCTACCCTA-CAGGGGTATTTCA
30852994 GTAATT
1 GTAATT
30853000 TTGCAAATCG
Statistics
Matches: 872, Mismatches: 119, Indels: 21
0.86 0.12 0.02
Matches are distributed among these distances:
26 93 0.11
27 774 0.89
28 5 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:30853016 original size:80 final size:81
Alignment explanation
Indices: 30852955--30853215 Score: 242
Period size: 80 Copynumber: 3.2 Consensus size: 81
30852945 TTCTACCCTA
*
30852955 CAAGGGTATTTTAGTAATTTTACAAATCA-GGGTATTTCAGTAATTTTGCAAATCGGAGGTATTT
1 CAAGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTCAGTAATTTTACAAATCGGAGGTATTT
30853019 CGATAATTTTACAAAT
66 CGATAATTTTACAAAT
** ** * *
30853035 CGGGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAG-GGTATTT
1 CAAGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTCAGTAATTTTACAAATCGGAGGTATTT
* * * *
30853099 TGGTAATTTTATAAAC
66 CGATAATTTTACAAAT
* * * * ** * * *
30853115 CAGGGGTATTTTGGTAATTTTGCTAATC-GAGGGTATTTTGGTAATTTTGCTAAT-TGAGGGTAT
1 CAAGGGTATTTTAGTAATTTTACAAATCAG-GGGTATTTCAGTAATTTTACAAATCGGA-GGTAT
* * * *
30853178 TTTGGTAATTTTGCTAAT
64 TTCGATAATTTTACAAAT
* *
30853196 CGAGGGTATTTTGGTAATTT
1 CAAGGGTATTTTAGTAATTT
30853216 GATAAACTAA
Statistics
Matches: 152, Mismatches: 25, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
79 2 0.01
80 91 0.60
81 59 0.39
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (81 bp):
CAAGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTCAGTAATTTTACAAATCGGAGGTATTT
CGATAATTTTACAAAT
Found at i:30853025 original size:27 final size:26
Alignment explanation
Indices: 30852958--30853215 Score: 282
Period size: 27 Copynumber: 9.7 Consensus size: 26
30852948 TACCCTACAA
* *
30852958 GGGTATTTTAGTAATTTTACAAATCA
1 GGGTATTTTGGTAATTTTACAAATCG
** *
30852984 GGGTATTTCAGTAATTTTGCAAATCG
1 GGGTATTTTGGTAATTTTACAAATCG
* *
30853010 GAGGTATTTCGATAATTTTACAAATCGG
1 G-GGTATTTTGGTAATTTTACAAATC-G
*
30853038 GGGTATTTTAGTAATTTTACAAATCAG
1 GGGTATTTTGGTAATTTTACAAATC-G
* *
30853065 GGGTATTTTGGTAATTTTACAAACCA
1 GGGTATTTTGGTAATTTTACAAATCG
* *
30853091 GGGTATTTTGGTAATTTTATAAACCAG
1 GGGTATTTTGGTAATTTTACAAATC-G
* *
30853118 GGGTATTTTGGTAATTTTGCTAATCG
1 GGGTATTTTGGTAATTTTACAAATCG
* * *
30853144 AGGGTATTTTGGTAATTTTGCTAATTG
1 -GGGTATTTTGGTAATTTTACAAATCG
* *
30853171 AGGGTATTTTGGTAATTTTGCTAATCG
1 -GGGTATTTTGGTAATTTTACAAATCG
30853198 AGGGTATTTTGGTAATTT
1 -GGGTATTTTGGTAATTT
30853216 GATAAACTAA
Statistics
Matches: 207, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
26 49 0.24
27 156 0.75
28 2 0.01
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAATCG
Found at i:30853123 original size:107 final size:107
Alignment explanation
Indices: 30852957--30853222 Score: 311
Period size: 107 Copynumber: 2.5 Consensus size: 107
30852947 CTACCCTACA
* * ** ** *
30852957 AGGGTATTTTAGTAATTTTACAAATCAGGGTATTTCAGTAATTTTGCAAATCGGAGGTATTTCGA
1 AGGGTATTTTGGTAATTTTACAAACCAGGGTATTTTGGTAATTTTATAAACCGGAGGTATTTCGA
*
30853022 TAATTTTACAAATCGGGGGTATTTTAGTAATTTTACAAATCAG
66 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAAT-AG
*
30853065 -GGGTATTTTGGTAATTTTACAAACCAGGGTATTTTGGTAATTTTATAAACCAGG-GGTATTTTG
1 AGGGTATTTTGGTAATTTTACAAACCAGGGTATTTTGGTAATTTTATAAACC-GGAGGTATTTCG
* * * * * * *
30853128 GTAATTTTGCTAATCGAGGGTATTTTGGTAATTTTGCTAATTG
65 ATAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATAG
* * * *
30853171 AGGGTATTTTGGTAATTTTGCTAATCGAGGGTATTTTGGTAATTTGATAAAC
1 AGGGTATTTTGGTAATTTTAC-AAACCAGGGTATTTTGGTAATTTTATAAAC
30853223 TAAAGGGTTC
Statistics
Matches: 135, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
106 1 0.01
107 105 0.78
108 29 0.21
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (107 bp):
AGGGTATTTTGGTAATTTTACAAACCAGGGTATTTTGGTAATTTTATAAACCGGAGGTATTTCGA
TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATAG
Found at i:30854978 original size:27 final size:27
Alignment explanation
Indices: 30854946--30855036 Score: 81
Period size: 27 Copynumber: 3.6 Consensus size: 27
30854936 TGTCTTAGTT
30854946 TATTTAATGTGTTCTAATTAGTTCAGC
1 TATTTAATGTGTTCTAATTAGTTCAGC
* *
30854973 AATTTAAAT-TG-TCT--TAAGTT----
1 TATTT-AATGTGTTCTAATTAGTTCAGC
30854993 TATTTAATGTGTTCTAATTAGTTCAGC
1 TATTTAATGTGTTCTAATTAGTTCAGC
* *
30855020 TATTTAATATGTCCTAA
1 TATTTAATGTGTTCTAA
30855037 GTTTATTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
19 3 0.06
20 6 0.12
21 3 0.06
23 5 0.10
24 5 0.10
26 3 0.06
27 21 0.43
28 3 0.06
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (27 bp):
TATTTAATGTGTTCTAATTAGTTCAGC
Found at i:30854995 original size:47 final size:46
Alignment explanation
Indices: 30854929--30855052 Score: 196
Period size: 47 Copynumber: 2.7 Consensus size: 46
30854919 TAGTTTAAGT
30854929 ATTTAATTGTCTT-AGTTTATTTAATGTGTTCTAATTAGTTCAGCA
1 ATTTAATTGTCTTAAGTTTATTTAATGTGTTCTAATTAGTTCAGCA
*
30854974 ATTTAAATTGTCTTAAGTTTATTTAATGTGTTCTAATTAGTTCAGCT
1 ATTT-AATTGTCTTAAGTTTATTTAATGTGTTCTAATTAGTTCAGCA
* *
30855021 ATTTAATATGTCCTAAGTTTATTTAATATGTT
1 ATTTAAT-TGTCTTAAGTTTATTTAATGTGTT
30855053 TTAGTTAATA
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
45 4 0.05
46 12 0.16
47 57 0.78
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.52
Consensus pattern (46 bp):
ATTTAATTGTCTTAAGTTTATTTAATGTGTTCTAATTAGTTCAGCA
Found at i:30865288 original size:57 final size:57
Alignment explanation
Indices: 30865227--30865361 Score: 207
Period size: 57 Copynumber: 2.4 Consensus size: 57
30865217 ACAATTTTGT
* * *
30865227 TTTTCTCCAAAATGAAAATGAAAATGAAGAAATGAAAACATTTTGAAATTATTATGG
1 TTTTCTCCAAAATGAAAATGAAAATGAAGAAATGAAAACATTTGGAAATGAATATGG
* * * *
30865284 TTTTCTCCAAAATGAAAATGAAAATGGAGAAATGAAATCATTTGGACATGAATGTGG
1 TTTTCTCCAAAATGAAAATGAAAATGAAGAAATGAAAACATTTGGAAATGAATATGG
30865341 TTTTCTCCAAAATGAAAATGA
1 TTTTCTCCAAAATGAAAATGA
30865362 CCTGAAAAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 71 1.00
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.30
Consensus pattern (57 bp):
TTTTCTCCAAAATGAAAATGAAAATGAAGAAATGAAAACATTTGGAAATGAATATGG
Found at i:30867112 original size:40 final size:40
Alignment explanation
Indices: 30867056--30867273 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
30867046 CGGATGATAA
* *
30867056 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
30867096 TCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
30867136 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
30867176 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
30867216 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
30867256 CC-GGCTAAATCCCAAAGG
1 CCGGGCTAAGTCCCGAAGG
30867274 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 146 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:30874176 original size:31 final size:31
Alignment explanation
Indices: 30874141--30874202 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
30874131 TAAATTTGAT
30874141 TACATTTAGATCAAGAAAGGAAAAATACAGA
1 TACATTTAGATCAAGAAAGGAAAAATACAGA
*
30874172 TACATTTAGATCAAGAAAGGCAAAATACAGA
1 TACATTTAGATCAAGAAAGGAAAAATACAGA
30874203 CTTATATCGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.53, C:0.11, G:0.16, T:0.19
Consensus pattern (31 bp):
TACATTTAGATCAAGAAAGGAAAAATACAGA
Found at i:30878142 original size:43 final size:44
Alignment explanation
Indices: 30878030--30878142 Score: 135
Period size: 42 Copynumber: 2.6 Consensus size: 44
30878020 TAATGCCAAC
* * * *
30878030 GTCCCAGACGTGGTCTTATATGTAAA-CAAATATCGATGCCAGT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATATCGATACCAGT
* *
30878073 GTCCCAGACAGGGTCTTACAC-AAAATCAAATAT-GATACC-GAT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATATCGATACCAG-T
30878115 GTCCCAGACATGGTCTTACACGTAAATC
1 GTCCCAGACATGGTCTTACACGTAAATC
30878143 GTAAGCCGAT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.02
42 29 0.49
43 29 0.49
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACACGTAAATCAAATATCGATACCAGT
Found at i:30882791 original size:15 final size:15
Alignment explanation
Indices: 30882745--30882792 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
30882735 AAACCTACAA
*
30882745 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
30882760 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
30882774 AAACTTCATATCCAT
1 AAACTTCATATCCAT
30882789 AAAC
1 AAAC
30882793 CCACCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:30884469 original size:14 final size:14
Alignment explanation
Indices: 30884450--30884494 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
30884440 AACTCATCTT
*
30884450 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
30884464 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
30884477 AATTTAATTTAATG
1 AGTTTAATTTAATG
30884491 AGTT
1 AGTT
30884495 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:30885524 original size:15 final size:15
Alignment explanation
Indices: 30885478--30885525 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
30885468 AAACCTACAA
*
30885478 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
30885493 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
30885507 AAACTTCATATCCAT
1 AAACTTCATATCCAT
30885522 AAAC
1 AAAC
30885526 CTATATTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:30885765 original size:13 final size:13
Alignment explanation
Indices: 30885747--30885794 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
30885737 AGTAAGTTTG
30885747 AAAAAAAATCGAA
1 AAAAAAAATCGAA
* *
30885760 AAAAAAATTCAAAA
1 AAAAAAAATC-GAA
*
30885774 AAAAAAAATTGAA
1 AAAAAAAATCGAA
30885787 AAAAAAAA
1 AAAAAAAA
30885795 CAAAATTTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
13 19 0.66
14 10 0.34
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.10
Consensus pattern (13 bp):
AAAAAAAATCGAA
Found at i:30885781 original size:18 final size:15
Alignment explanation
Indices: 30885758--30885794 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
30885748 AAAAAAATCG
30885758 AAAAAAAAATTCAAA
1 AAAAAAAAATTCAAA
*
30885773 AAAAAAAAATTGAAA
1 AAAAAAAAATTCAAA
30885788 AAAAAAA
1 AAAAAAA
30885795 CAAAATTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.84, C:0.03, G:0.03, T:0.11
Consensus pattern (15 bp):
AAAAAAAAATTCAAA
Found at i:30885792 original size:19 final size:19
Alignment explanation
Indices: 30885770--30885807 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
30885760 AAAAAAATTC
30885770 AAAAAAAAAAAATTGAAAA
1 AAAAAAAAAAAATTGAAAA
* *
30885789 AAAAAACAAAATTTGAAAA
1 AAAAAAAAAAAATTGAAAA
30885808 TTTGAACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (19 bp):
AAAAAAAAAAAATTGAAAA
Found at i:30885799 original size:18 final size:18
Alignment explanation
Indices: 30885770--30885807 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 18
30885760 AAAAAAATTC
30885770 AAAAAAAAAAAA-TTGAA
1 AAAAAAAAAAAATTTGAA
30885787 AAAAAAAACAAAATTTGAA
1 AAAAAAAA-AAAATTTGAA
30885806 AA
1 AA
30885808 TTTGAACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
18 4 0.21
19 7 0.37
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (18 bp):
AAAAAAAAAAAATTTGAA
Found at i:30890132 original size:29 final size:29
Alignment explanation
Indices: 30890099--30890158 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
30890089 ATAACCAAAC
*
30890099 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
* *
30890128 CTACATAAACTTCATATCCATAAACCTAT
1 CTACAAAAACTTCATATCCATAAACCCAT
30890157 CT
1 CT
30890159 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:30890151 original size:15 final size:15
Alignment explanation
Indices: 30890105--30890152 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
30890095 AAACCTACAA
*
30890105 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
30890120 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
30890134 AAACTTCATATCCAT
1 AAACTTCATATCCAT
30890149 AAAC
1 AAAC
30890153 CTATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:30892622 original size:24 final size:23
Alignment explanation
Indices: 30892595--30892714 Score: 84
Period size: 24 Copynumber: 4.9 Consensus size: 23
30892585 GCAATCAAAC
30892595 TTTTCTTTTCTTTTTCATTTTCAT
1 TTTTCTTTTCTTTTTC-TTTTCAT
* *
30892619 TTTTTTTCTTGTTTTTCTTTTC-T
1 TTTTCTT-TTCTTTTTCTTTTCAT
*
30892642 CGTTTTCTCTTT-TCTTTCTTTTGCTAT
1 --TTTTCT-TTTCTTTTTCTTTT-C-AT
* *
30892669 TTTTGC-TTTCTTTTCTCATTTCTT
1 TTTT-CTTTTCTTTT-TCTTTTCAT
30892693 TTTTCTTTTTCTTTTTCTTTTC
1 TTTTC-TTTTCTTTTTCTTTTC
30892715 TTTCTTTTTC
Statistics
Matches: 76, Mismatches: 8, Indels: 24
0.70 0.07 0.22
Matches are distributed among these distances:
23 2 0.03
24 34 0.45
25 32 0.42
26 7 0.09
27 1 0.01
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.75
Consensus pattern (23 bp):
TTTTCTTTTCTTTTTCTTTTCAT
Found at i:30892639 original size:14 final size:14
Alignment explanation
Indices: 30892618--30892657 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
30892608 TTCATTTTCA
30892618 TTTT-TTTTCTTGT
1 TTTTCTTTTCTTGT
*
30892631 TTTTCTTTTCTCGT
1 TTTTCTTTTCTTGT
30892645 TTTCTCTTTTCTT
1 TTT-TCTTTTCTT
30892658 TCTTTTGCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 4 0.17
14 11 0.48
15 8 0.35
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.78
Consensus pattern (14 bp):
TTTTCTTTTCTTGT
Found at i:30892689 original size:19 final size:18
Alignment explanation
Indices: 30892595--30892717 Score: 71
Period size: 19 Copynumber: 6.7 Consensus size: 18
30892585 GCAATCAAAC
30892595 TTTTCTTTTCTTTT-TCA-
1 TTTTC-TTTCTTTTCTCAT
* **
30892612 TTTTCATTTTTTTTCTTGT
1 TTTTC-TTTCTTTTCTCAT
30892631 TTTTCTTTTCTCGTTT-TC-T
1 TTTTC-TTTCT--TTTCTCAT
30892650 CTTTTCTTTCTTTTGCT-AT
1 -TTTTCTTTCTTTT-CTCAT
30892669 TTTTGCTTTCTTTTCTCAT
1 TTTT-CTTTCTTTTCTCAT
*
30892688 TTCTTTTTTCTTTT-TC-T
1 TT-TTCTTTCTTTTCTCAT
30892705 TTTTCTTTTCTTT
1 TTTTC-TTTCTTT
30892718 CTTTTTCAAC
Statistics
Matches: 85, Mismatches: 9, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
16 2 0.02
17 25 0.29
18 9 0.11
19 38 0.45
20 8 0.09
21 3 0.04
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTTCTTTCTTTTCTCAT
Found at i:30892692 original size:12 final size:11
Alignment explanation
Indices: 30892675--30892748 Score: 51
Period size: 12 Copynumber: 6.2 Consensus size: 11
30892665 CTATTTTTGC
*
30892675 TTTCTTTTCTCA
1 TTTCTTTT-TCT
30892687 TTTCTTTTTTCTT
1 TTTC-TTTTTC-T
30892700 TTTCTTTTTCT
1 TTTCTTTTTCT
30892711 TTTCTTTCTT-T
1 TTTCTTT-TTCT
*
30892722 TTCAACTTTGTTCT
1 TT--TCTTT-TTCT
*
30892736 CTTCTTTTTCT
1 TTTCTTTTTCT
30892747 TT
1 TT
30892749 CAACTGGTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
11 16 0.32
12 18 0.36
13 14 0.28
14 2 0.04
ACGTcount: A:0.04, C:0.20, G:0.01, T:0.74
Consensus pattern (11 bp):
TTTCTTTTTCT
Found at i:30892715 original size:24 final size:24
Alignment explanation
Indices: 30892595--30892717 Score: 96
Period size: 25 Copynumber: 5.0 Consensus size: 24
30892585 GCAATCAAAC
30892595 TTTTC-TTTTCTTTTTCATTTTCATT
1 TTTTCTTTTTCTTTTTC-TTTTC-TT
* * *
30892620 TTTT-TTCTTGTTTTTCTTTTCTCG
1 TTTTCTTTTTCTTTTTCTTTTCT-T
30892644 TTTTCTCTTTTC--TTTCTTTTGCTAT
1 TTTTCT-TTTTCTTTTTCTTTT-CT-T
*
30892669 TTTTGC--TTTCTTTTCTCATTTCTT
1 TTTT-CTTTTTCTTTT-TCTTTTCTT
30892693 TTTTCTTTTTCTTTTTCTTTTCTT
1 TTTTCTTTTTCTTTTTCTTTTCTT
30892717 T
1 T
30892718 CTTTTTCAAC
Statistics
Matches: 78, Mismatches: 9, Indels: 23
0.71 0.08 0.21
Matches are distributed among these distances:
23 6 0.08
24 31 0.40
25 32 0.41
26 9 0.12
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (24 bp):
TTTTCTTTTTCTTTTTCTTTTCTT
Found at i:30892724 original size:6 final size:6
Alignment explanation
Indices: 30892595--30892717 Score: 71
Period size: 6 Copynumber: 20.3 Consensus size: 6
30892585 GCAATCAAAC
* * *
30892595 TTTTC- TTTTCT TTTTCA TTTTCAT TTTT-T TTCTTGT TTTTCT TTTCTCG
1 TTTTCT TTTTCT TTTTCT TTTTC-T TTTTCT TT-TTCT TTTTCT TTT-TCT
* * *
30892644 TTTTCT CTTTTC- -TTTCT TTTGCT ATTTT-T GCTTTC- TTTTCT CATTTCTT
1 TTTTCT -TTTTCT TTTTCT TTTTCT -TTTTCT -TTTTCT TTTTCT -TTTTC-T
30892693 TTTTCT TTTTCT TTTTC- TTTTCT TT
1 TTTTCT TTTTCT TTTTCT TTTTCT TT
30892718 CTTTTTCAAC
Statistics
Matches: 92, Mismatches: 12, Indels: 27
0.70 0.09 0.21
Matches are distributed among these distances:
4 4 0.04
5 17 0.18
6 42 0.46
7 28 0.30
8 1 0.01
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTTCT
Found at i:30892741 original size:25 final size:24
Alignment explanation
Indices: 30892703--30892753 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
30892693 TTTTCTTTTT
*
30892703 CTTTTTCTTTTCTTTCTT-TTTCAA
1 CTTTTTCTCTTCTTT-TTCTTTCAA
30892727 CTTTGTTCTCTTCTTTTTCTTTCAA
1 CTTT-TTCTCTTCTTTTTCTTTCAA
30892752 CT
1 CT
30892754 GGTTTGCAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.08, C:0.24, G:0.02, T:0.67
Consensus pattern (24 bp):
CTTTTTCTCTTCTTTTTCTTTCAA
Found at i:30899384 original size:39 final size:39
Alignment explanation
Indices: 30899330--30899405 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
30899320 TTTAGCTTGT
30899330 GTCTTTAATTATGTCATAGTTTGAACATCATTAATATAA
1 GTCTTTAATTATGTCATAGTTTGAACATCATTAATATAA
*
30899369 GTCTTTAATTATGTCATAGTTTGAGCATCATTAATAT
1 GTCTTTAATTATGTCATAGTTTGAACATCATTAATAT
30899406 GTGTTCTACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.45
Consensus pattern (39 bp):
GTCTTTAATTATGTCATAGTTTGAACATCATTAATATAA
Found at i:30902447 original size:10 final size:10
Alignment explanation
Indices: 30902432--30902458 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
30902422 TACACCTTCA
30902432 AGCTCAAATC
1 AGCTCAAATC
30902442 AGCTCAAATC
1 AGCTCAAATC
30902452 AGCTCAA
1 AGCTCAA
30902459 CTTCAACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:30902480 original size:10 final size:10
Alignment explanation
Indices: 30902432--30902480 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
30902422 TACACCTTCA
*
30902432 AGCTCAAATC
1 AGCTCAACTC
*
30902442 AGCTCAAATC
1 AGCTCAACTC
30902452 AGCTCAACTTC
1 AGCTCAAC-TC
* *
30902463 AACTCAACTT
1 AGCTCAACTC
30902473 AGCTCAAC
1 AGCTCAAC
30902481 GAGCTCGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 25 0.74
11 9 0.26
ACGTcount: A:0.37, C:0.33, G:0.08, T:0.22
Consensus pattern (10 bp):
AGCTCAACTC
Found at i:30906322 original size:65 final size:65
Alignment explanation
Indices: 30906222--30906344 Score: 219
Period size: 65 Copynumber: 1.9 Consensus size: 65
30906212 TATGCATCAG
* *
30906222 ATAATAATATGGCATGCAGTAAATAGTAACTGTCAAACATGCATTCAGGTCAACCTTATCAGATA
1 ATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTATCAGATA
*
30906287 ATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTTAACCTTA
1 ATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTA
30906345 ACCCTAGGGG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (65 bp):
ATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTTATCAGATA
Found at i:30906403 original size:27 final size:26
Alignment explanation
Indices: 30906347--30906403 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
30906337 TAACCTTAAC
* * *
30906347 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
30906373 CCTAGGGGTAAATCTA-TAAATTTTCCA
1 CCTAGGGGTAAATC-AGT-AATTTTCCA
30906400 CCTA
1 CCTA
30906404 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:30907701 original size:13 final size:12
Alignment explanation
Indices: 30907660--30907702 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
30907650 AAGAAAAAGC
30907660 AAAAAGGAAGAA
1 AAAAAGGAAGAA
*
30907672 AGAAAATGGAGGAA
1 A-AAAA-GGAAGAA
30907686 AAAAGAGGAAGAA
1 AAAA-AGGAAGAA
30907699 AAAA
1 AAAA
30907703 TCGGCACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 1 0.04
13 17 0.65
14 8 0.31
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (12 bp):
AAAAAGGAAGAA
Found at i:30912015 original size:6 final size:6
Alignment explanation
Indices: 30912006--30912054 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
30911996 TAGAAAAATC
* *
30912006 AAAAGA AAAAGA ACAAGA AAAA-A AGAATGA AAAAGA AAAAG- AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA A-AAAGA AAAAGA AAAAGA AAAAGA
30912053 AA
1 AA
30912055 GTAGAATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 7 0.19
6 27 0.75
7 2 0.06
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:30916324 original size:39 final size:40
Alignment explanation
Indices: 30916223--30916446 Score: 237
Period size: 39 Copynumber: 5.7 Consensus size: 40
30916213 TTGAATGATG
* *
30916223 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
30916262 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
30916303 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
30916342 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * * *
30916381 TCCGGGTTAAGTCCTGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * * *
30916420 AACCGGGCTATGTCCCAAAGGCGTTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
30916447 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
39 75 0.47
40 72 0.45
41 12 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:30916426 original size:79 final size:80
Alignment explanation
Indices: 30916223--30916429 Score: 260
Period size: 79 Copynumber: 2.6 Consensus size: 80
30916213 TTGAATGATG
* * * * *
30916223 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
*
30916287 TGTGCGAGATACTAAT
65 TGTGCGAGATACTAAA
*
30916303 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCATT
*
30916365 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * *
30916381 TCCGGGTTAAGTCCTGAAGGCAATTGTGCGAGTTACTATAACCGGGCTA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTA
30916430 TGTCCCAAAG
Statistics
Matches: 110, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
78 36 0.33
79 55 0.50
80 19 0.17
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:30924668 original size:40 final size:40
Alignment explanation
Indices: 30924440--30924661 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
30924430 TTGAATGATG
* * * *
30924440 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
30924479 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
30924519 TCCGGGCTAAG-CCAGAAGGCA-TTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30924557 TCCAGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
30924596 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
30924637 -CCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30924662 AACGAGTAGC
Statistics
Matches: 154, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
38 36 0.23
39 49 0.32
40 61 0.40
41 8 0.05
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30939293 original size:18 final size:18
Alignment explanation
Indices: 30939266--30939310 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
30939256 CTAGGCCGTA
* *
30939266 TGGG-CCATACGGTCGTG
1 TGGGCCCATACGGGCATG
30939283 TGGGCCCATACGGGCATG
1 TGGGCCCATACGGGCATG
*
30939301 TGAGCCCATA
1 TGGGCCCATA
30939311 ATTCTAGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.18, C:0.27, G:0.36, T:0.20
Consensus pattern (18 bp):
TGGGCCCATACGGGCATG
Found at i:30964509 original size:27 final size:26
Alignment explanation
Indices: 30964461--30964520 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
30964451 GTGAGGCTGC
*
30964461 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* *
30964488 CAGATATTGTGCCTAAGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
30964514 CATATAT
1 CAGATAT
30964521 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:30967919 original size:17 final size:17
Alignment explanation
Indices: 30967897--30967929 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30967887 TCGGCCATAT
*
30967897 AATATGAATATGTATGA
1 AATATGAATATATATGA
30967914 AATATGAATATATATG
1 AATATGAATATATATG
30967930 CGATTGTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
AATATGAATATATATGA
Found at i:30974221 original size:93 final size:93
Alignment explanation
Indices: 30974092--30974263 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
30974082 CGCCCATAAG
*
30974092 CGAACTCAGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30974157 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
30974185 CGAACTCGGACTCAACTCAATGAGTTCG-GACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
30974249 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
30974264 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:30974259 original size:46 final size:47
Alignment explanation
Indices: 30974085--30974260 Score: 202
Period size: 46 Copynumber: 3.8 Consensus size: 47
30974075 TGTAACCCGC
* * *
30974085 CCATAAGCGAACTCAGACTCAACTCAACGAGCTC-GAGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
* *
30974131 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
* *
30974181 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGGA-CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
*
30974224 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
30974261 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 59 0.54
47 30 0.28
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:30974279 original size:46 final size:44
Alignment explanation
Indices: 30974136--30974279 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
30974126 CGCATCCATA
30974136 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * * *
30974183 CA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
30974229 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
30974275 AGTGA
1 AGTGA
30974280 CATGTCACTT
Statistics
Matches: 78, Mismatches: 11, Indels: 16
0.74 0.10 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 32 0.41
47 30 0.38
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:30974713 original size:30 final size:30
Alignment explanation
Indices: 30974678--30974738 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
30974668 TCCTTAACTC
30974678 AAATTTTGGCAAAATTACAATTTTACCCCT
1 AAATTTTGGCAAAATTACAATTTTACCCCT
* * * * *
30974708 AAATTTTTGCATATTTACATTTTTGCCCCT
1 AAATTTTGGCAAAATTACAATTTTACCCCT
30974738 A
1 A
30974739 GGCTCGGGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.43
Consensus pattern (30 bp):
AAATTTTGGCAAAATTACAATTTTACCCCT
Found at i:30981781 original size:93 final size:93
Alignment explanation
Indices: 30981668--30981839 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
30981658 CGCCCATAAG
* *
30981668 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30981733 ACAAGTTCGGATGCCTAGTTACATCTCA
66 ACAAGTTCGGATGCCTAGTTACATCTCA
* *
30981761 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
30981826 ACGAGTTCGGATGC
66 ACAAGTTCGGATGC
30981840 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:30981836 original size:46 final size:46
Alignment explanation
Indices: 30981661--30981836 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
30981651 TGTAACCCGC
* * * *
30981661 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
30981707 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
30981757 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
30981800 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
30981837 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:30981855 original size:46 final size:46
Alignment explanation
Indices: 30981710--30981848 Score: 135
Period size: 47 Copynumber: 3.0 Consensus size: 46
30981700 TTCGCATCCA
*
30981710 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
30981758 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
30981803 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
30981849 CTAGTGACAT
Statistics
Matches: 74, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.38
47 29 0.39
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:30984734 original size:29 final size:28
Alignment explanation
Indices: 30984698--30984775 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
30984688 TCATGAGATT
30984698 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
30984728 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
30984755 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
30984776 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:30984993 original size:174 final size:174
Alignment explanation
Indices: 30984728--30985229 Score: 914
Period size: 174 Copynumber: 2.9 Consensus size: 174
30984718 AAATTGTACA
*
30984728 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
30984793 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGTGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
*
30984858 TTTTGGACCGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * *
30984902 GCACTAAGTGTGTGAGTTTAAAGTGCATGGTACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
30984967 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
*
30985032 ATTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
30985076 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
30985141 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
30985206 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
30985230 ACCTTGACTT
Statistics
Matches: 314, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 314 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:30993026 original size:29 final size:28
Alignment explanation
Indices: 30992990--30993066 Score: 111
Period size: 29 Copynumber: 2.7 Consensus size: 28
30992980 TCATGAGATT
30992990 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
30993020 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
30993047 TGGCACTAAGTGTGCGGGTT
1 -GGCACTAAGTGTGCGGGTT
30993067 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
27 5 0.12
29 38 0.88
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:30994212 original size:29 final size:30
Alignment explanation
Indices: 30994173--30994251 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
30994163 CTTAATAATC
30994173 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
30994203 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
30994232 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
30994252 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:31002300 original size:29 final size:29
Alignment explanation
Indices: 31002261--31002337 Score: 106
Period size: 27 Copynumber: 2.7 Consensus size: 29
31002251 GCTTAATATC
31002261 AACCGCGCACACTTAGTGCCATGTAC-TTT
1 AACC-CGCACACTTAGTGCCATGTACATTT
*
31002290 AAACTCGCACACTTAGTG-C-TGTACATTT
1 -AACCCGCACACTTAGTGCCATGTACATTT
31002318 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
31002338 ATCTCATGAC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 21 0.50
28 5 0.12
29 13 0.31
30 3 0.07
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGTACATTT
Found at i:31002325 original size:27 final size:27
Alignment explanation
Indices: 31002239--31002335 Score: 101
Period size: 27 Copynumber: 3.5 Consensus size: 27
31002229 TATTTGGGTT
* *
31002239 CGCACACATAGTGCT-TA-ATATCAACC
1 CGCACACTTAGTGCTGTACAT-TTAACC
*
31002265 GCGCACACTTAGTGCCATGTAC-TTTAAACT
1 -CGCACACTTAGTG-C-TGTACATTT-AACC
31002295 CGCACACTTAGTGCTGTACATTTAACC
1 CGCACACTTAGTGCTGTACATTTAACC
31002322 CGCACACTTAGTGC
1 CGCACACTTAGTGC
31002336 CAATCTCATG
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
27 34 0.57
28 5 0.08
29 15 0.25
30 6 0.10
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTGTACATTTAACC
Found at i:31021912 original size:40 final size:40
Alignment explanation
Indices: 31021828--31021973 Score: 170
Period size: 40 Copynumber: 3.7 Consensus size: 40
31021818 TACCAGCTCG
* * * * *
31021828 TAGCCTGCAGGTCTCT-AGCCCGGATAGCATTCTAACATGA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCAT-A
*
31021868 -AGCCTGCGGGTCTTTAAGCCTGGATAACATTCCAGCATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCATA
* **
31021907 TAGCCTGTGGGTCTTTAAGCCCAAATAACATTCCAGCATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCATA
* *
31021947 TAGCTTGTGGGTCTTTAAGCCCGGATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATA
31021974 CAATTCCTCA
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 14 0.15
40 77 0.85
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCATA
Found at i:31021980 original size:40 final size:40
Alignment explanation
Indices: 31021844--31021973 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
31021834 GCAGGTCTCT
* * * *
31021844 AGCCCGGATAGCATTCTAACATGA-AGCCTGCGGGTCTTTA
1 AGCCCGGATAACATTCCAGCAT-ATAGCCTGTGGGTCTTTA
*
31021884 AGCCTGGATAACATTCCAGCATATAGCCTGTGGGTCTTTA
1 AGCCCGGATAACATTCCAGCATATAGCCTGTGGGTCTTTA
** *
31021924 AGCCCAAATAACATTCCAGCATATAGCTTGTGGGTCTTTA
1 AGCCCGGATAACATTCCAGCATATAGCCTGTGGGTCTTTA
31021964 AGCCCGGATA
1 AGCCCGGATA
31021974 CAATTCCTCA
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 77 0.99
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (40 bp):
AGCCCGGATAACATTCCAGCATATAGCCTGTGGGTCTTTA
Found at i:31024762 original size:24 final size:24
Alignment explanation
Indices: 31024734--31024812 Score: 58
Period size: 24 Copynumber: 3.2 Consensus size: 24
31024724 CACTTAGTAC
31024734 TACACATGTGACCTAACCATCTGA
1 TACACATGTGACCTAACCATCTGA
*
31024758 TACACGTAGT-AGCCT-A-CA-CTTAGTA
1 TACACAT-GTGA-CCTAACCATC-T-G-A
*
31024783 CTACACACGTGACCTAACCATCTGA
1 -TACACATGTGACCTAACCATCTGA
31024808 TACAC
1 TACAC
31024813 GTAGTAGCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 20
0.65 0.05 0.31
Matches are distributed among these distances:
22 1 0.02
23 3 0.07
24 14 0.33
25 12 0.29
26 8 0.19
27 3 0.07
28 1 0.02
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.24
Consensus pattern (24 bp):
TACACATGTGACCTAACCATCTGA
Found at i:31024775 original size:50 final size:50
Alignment explanation
Indices: 31024665--31024947 Score: 315
Period size: 50 Copynumber: 5.7 Consensus size: 50
31024655 ATGGTACGCA
* * * *
31024665 TAGTAGCC-AGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTA-CACTTAGTACTACACACGTGACCTAATTATCTGATACACG
* **
31024714 TAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTAATTATCTGATACACG
**
31024764 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTAATTATCTGATACACG
* * * * * *
31024814 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAT-TGGGTACGCA
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTAA-TTATCT-GATACACG
* * * *
31024865 TAGTAGCCTACACTTAGTACTACACAAGCGACC-AATTATC-CAGTGCACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTAATTATCTGA-TACACG
*
31024914 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TAGTAGCCTACACTTAGTACTACACACGTGACCT
31024948 CACAATAGAT
Statistics
Matches: 201, Mismatches: 26, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
49 67 0.33
50 98 0.49
51 36 0.18
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTACACTTAGTACTACACACGTGACCTAATTATCTGATACACG
Found at i:31028715 original size:27 final size:28
Alignment explanation
Indices: 31028634--31028728 Score: 129
Period size: 27 Copynumber: 3.4 Consensus size: 28
31028624 GAGATTGGCG
* * * *
31028634 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
31028663 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
31028691 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
31028718 CTGAGTGTGCG
1 CTAAGTGTGCG
31028729 GACTTAATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.39
28 22 0.36
29 15 0.25
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:31028742 original size:29 final size:27
Alignment explanation
Indices: 31028659--31028742 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
31028649 TAAATTGTAC
* *
31028659 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
31028687 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
31028714 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
31028743 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:31034771 original size:49 final size:49
Alignment explanation
Indices: 31034606--31034829 Score: 259
Period size: 49 Copynumber: 4.5 Consensus size: 49
31034596 GAGGTCGCAC
* * * * **
31034606 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTAATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGT
* * * **
31034657 GTGTAGTACTAAGTGCATGCTACTACGTGTATCAGATGGTTAGGTCACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACGT
*
31034707 GTGTAGTACTAAGTGCAGGCTACTACGTGTACGGGATAATTGGTCACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGT
* * * *
31034756 GTGTAGTACTAAGTGCAAGCTCCTACGTGTACCGGATAATTGGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGT
**
31034805 GTGTAGTACTATTTGCAGGCTACTA
1 GTGTAGTACTAAGTGCAGGCTACTA
31034830 TGCATACCAG
Statistics
Matches: 147, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
49 74 0.50
50 42 0.29
51 31 0.21
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGT
Found at i:31034772 original size:99 final size:100
Alignment explanation
Indices: 31034606--31034829 Score: 272
Period size: 99 Copynumber: 2.2 Consensus size: 100
31034596 GAGGTCGCAC
*
31034606 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTAATCACGTGTGTAGTACTAAGT
1 GTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTAATCACGTGTGTAGTACTAAGT
* * ** *
31034671 GCATGCTACTACGTGTATCAGATGGTTAGGTCACGT
66 GCAAGCTACTACGTGTACCAGATAATT-GGTCACAT
* ** * **
31034707 GTGTAGTACTAAGTGCAGGCTACTACGTGTACGGGATAA-T-TGGTCACGTGTGTAGTACTAAGT
1 GTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTAATCACGTGTGTAGTACTAAGT
* * *
31034770 GCAAGCTCCTACGTGTACCGGATAATTGGTCGCAT
66 GCAAGCTACTACGTGTACCAGATAATTGGTCACAT
**
31034805 GTGTAGTACTATTTGCAGGCTACTA
1 GTGTAGTACTAAGTGCAGGCTACTA
31034830 TGCATACCAG
Statistics
Matches: 106, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
98 29 0.27
99 42 0.40
100 1 0.01
101 34 0.32
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (100 bp):
GTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTAATCACGTGTGTAGTACTAAGT
GCAAGCTACTACGTGTACCAGATAATTGGTCACAT
Found at i:31037493 original size:40 final size:39
Alignment explanation
Indices: 31037449--31037908 Score: 501
Period size: 40 Copynumber: 11.6 Consensus size: 39
31037439 GCTCCTCGTT
*
31037449 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAATTCGCA
* * *
31037489 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAATTCGCA
* * *
31037529 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAATTCGCA
*
31037569 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAAT-TCGCA
* * *
31037608 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAATTCGCA
*
31037648 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAAT-TCGCA
*
31037687 CAAATGCCTTCGGGACTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAAT-TCGCA
*
31037727 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAAT-TCGCA
*
31037766 CAAATGCCTTCGGGACTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAAT-TCGCA
* * *
31037806 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAATTCGCA
* * *
31037846 CAAATGCCTTCGGG-CTTAGCCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGT-AATTCGCA
31037886 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
31037909 ACATCATTCA
Statistics
Matches: 380, Mismatches: 27, Indels: 27
0.88 0.06 0.06
Matches are distributed among these distances:
38 11 0.03
39 129 0.34
40 238 0.63
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAATTCGCA
Found at i:31037624 original size:79 final size:80
Alignment explanation
Indices: 31037449--31037909 Score: 695
Period size: 79 Copynumber: 5.8 Consensus size: 80
31037439 GCTCCTCGTT
* * *
31037449 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* *
31037513 GATTTAGTAACTCGCA
65 GAATTAGTATCTCGCA
*
31037529 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
31037593 AATTAGTATCTCGCA
66 AATTAGTATCTCGCA
*
31037608 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
31037672 AATTAGTATCTCGCA
66 AATTAGTATCTCGCA
* *
31037687 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
31037751 AATTAGTATCTCGCA
66 AATTAGTATCTCGCA
* * *
31037766 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
31037831 ATTTAGTAACTCGCA
66 AATTAGTATCTCGCA
* *
31037846 CAAATGCCTTCGGG-CTTAGCCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
31037907 GGA
64 GGA
31037910 CATCATTCAA
Statistics
Matches: 360, Mismatches: 17, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
78 20 0.06
79 247 0.69
80 91 0.25
81 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTATCTCGCA
Found at i:31037627 original size:119 final size:119
Alignment explanation
Indices: 31037449--31037909 Score: 693
Period size: 119 Copynumber: 3.9 Consensus size: 119
31037439 GCTCCTCGTT
* *
31037449 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGGG-CTTAACCC
* * *
31037512 GGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
63 GGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
31037569 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAACCCGG
31037633 ATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
65 ATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
31037687 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAACCCGGA
* *
31037752 ATTAGTATCTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
66 TTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * * *
31037806 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAACCCGGA
* *
31037871 TATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCGGA
66 T-TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
31037910 CATCATTCAA
Statistics
Matches: 320, Mismatches: 15, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
118 95 0.30
119 203 0.63
120 22 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAACCCGGA
TTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:31046085 original size:79 final size:79
Alignment explanation
Indices: 31045843--31046269 Score: 593
Period size: 79 Copynumber: 5.5 Consensus size: 79
31045833 TAACCGGTTA
* * * * * *
31045843 TAGTAATTTGCACAAATGCCTTCGGACTTA-ACCGGATTTAGTAACTCGCACAAATGCCTTCGGG
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG
* *
31045907 ACTTAACCCGGATT
66 ACTTAGCCCGGAAT
31045921 TAGTAACTCGCACAAATGCCTTC-GGCTTAG-CC-G-ATTAGTATCTCGCACAAATGCCTTCGGG
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG
* *
31045982 ACTTAACCCGGATT
66 ACTTAGCCCGGAAT
*
31045996 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCACAAATGCCTTCGGG
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG
31046061 ACTTAGCCCGGAAT
66 ACTTAGCCCGGAAT
*
31046075 TAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG
31046140 ACTTAGCCCGGAAT
66 ACTTAGCCCGGAAT
* * * *
31046154 TAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGG
31046219 G-CTTAGCCCGGATAT
65 GACTTAGCCCGGA-AT
* *
31046234 T-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGA
31046270 CATCATTCAA
Statistics
Matches: 324, Mismatches: 17, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
75 63 0.19
76 8 0.02
77 9 0.03
78 41 0.13
79 159 0.49
80 44 0.14
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG
ACTTAGCCCGGAAT
Found at i:31046145 original size:119 final size:119
Alignment explanation
Indices: 31045852--31046269 Score: 604
Period size: 119 Copynumber: 3.6 Consensus size: 119
31045842 ATAGTAATTT
* * * *
31045852 GCACAAATGCCTTCGGACTTA-ACCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
1 GCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
31045916 GGATTTAGTAACTCGCACAAATGCCTTC-GG-CTTAG-CC-G-ATTAGTATCTC
66 GGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTC
* *
31045965 GCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCC
1 GCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
*
31046029 CGAAATTAGTATCTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTC
65 CGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTC
*
31046084 GCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAGCCC
1 GCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* * *
31046149 GGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTC
66 GGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTC
* *
31046203 GCACAAATGCCTTCGGGCTTAGCCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGC
1 GCACAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
31046265 CCGGA
64 CCGGA
31046270 CATCATTCAA
Statistics
Matches: 279, Mismatches: 16, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
113 16 0.06
114 36 0.13
115 35 0.13
116 5 0.02
117 2 0.01
118 58 0.21
119 119 0.43
120 8 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (119 bp):
GCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
GGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTC
Found at i:31046263 original size:39 final size:40
Alignment explanation
Indices: 31045852--31046269 Score: 585
Period size: 40 Copynumber: 10.7 Consensus size: 40
31045842 ATAGTAATTT
* * *
31045852 GCACAAATGCCTTC-GGACTTA-ACCGGATTTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTC
* * *
31045890 GCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTC
31045930 GCACAAATGCCTTC-GG-CTTAG-CC-G-ATTAGTATCTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTC
* * *
31045965 GCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTC
*
31046005 GCACAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTC
31046044 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTC
31046084 GCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTC
31046123 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTC
* * *
31046163 GCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTC
*
31046203 GCACAAATGCCTTCGGG-CTTAGCCCGGATATT-GTCA-CTTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGA-ATTAGT-ATC-TC
31046243 GCAC-AA-GCCTTCGGGACTTAGCCCGGA
1 GCACAAATGCCTTCGGGACTTAGCCCGGA
31046270 CATCATTCAA
Statistics
Matches: 349, Mismatches: 18, Indels: 25
0.89 0.05 0.06
Matches are distributed among these distances:
35 23 0.07
36 3 0.01
37 6 0.02
38 29 0.08
39 110 0.32
40 178 0.51
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTC
Found at i:31048365 original size:49 final size:50
Alignment explanation
Indices: 31048176--31048370 Score: 212
Period size: 50 Copynumber: 3.9 Consensus size: 50
31048166 CTATTGTGAT
* * *
31048176 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TTAG
* * * * * * **
31048227 ATCATGTGTGTAGTACTAAGTGAAGGCTACTACGTGCATCAGATGGTTAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTAG
* * *
31048277 GTCACGTGTGTAGTACTAAGTGGAGGCTACTACGTGTACCGGATAATT-G
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTAG
* * * *
31048326 GTCGCATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCAGATA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
31048371 GCTTTGGCTA
Statistics
Matches: 118, Mismatches: 26, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
49 39 0.33
50 43 0.36
51 36 0.31
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (50 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTAG
Found at i:31049693 original size:47 final size:48
Alignment explanation
Indices: 31049607--31049731 Score: 134
Period size: 47 Copynumber: 2.7 Consensus size: 48
31049597 GTGTTGCAGC
* ***
31049607 CAGTGTAAGA-CATGTCTGGGACAT-GCATC-AGCTACGAGATGATTTT
1 CAGTGTAAGACCGTGTCTGGGACATGGCATCGAGCTACGAGAT-ATGAG
*
31049653 CAGTGTAAGACCGTGTCTGGGACATGGCATCGA-CT-TGAGATATGAG
1 CAGTGTAAGACCGTGTCTGGGACATGGCATCGAGCTACGAGATATGAG
* *
31049699 CTACTGTAAGACAGTGTCTGGGACATGGCATCG
1 C-AGTGTAAGACCGTGTCTGGGACATGGCATCG
31049732 GCACCTTACC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
46 13 0.19
47 47 0.69
48 7 0.10
49 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (48 bp):
CAGTGTAAGACCGTGTCTGGGACATGGCATCGAGCTACGAGATATGAG
Found at i:31057506 original size:47 final size:47
Alignment explanation
Indices: 31057452--31058343 Score: 1390
Period size: 47 Copynumber: 18.6 Consensus size: 47
31057442 TATTTGAATA
*
31057452 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31057499 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
31057548 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAAT-TGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31057594 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
31057643 AATGTGAAAGTGTATATATTTGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATA--TGTGATAAGGCCTAATGGCCGATGTGATG
31057692 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31057743 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31057790 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
31057839 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
31057890 AATGTGAATGTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
31057937 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATATGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
31057986 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31058033 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31058082 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31058129 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31058176 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31058223 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
31058270 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
31058317 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
31058344 CCCCGAAGGG
Statistics
Matches: 791, Mismatches: 35, Indels: 38
0.92 0.04 0.04
Matches are distributed among these distances:
46 17 0.02
47 415 0.52
48 27 0.03
49 237 0.30
51 89 0.11
53 6 0.01
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:31057560 original size:96 final size:95
Alignment explanation
Indices: 31057452--31058343 Score: 1391
Period size: 96 Copynumber: 9.3 Consensus size: 95
31057442 TATTTGAATA
*
31057452 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT-TATA
31057517 TATGTGATAAGGCCTAATGGCCGATGTGATG
65 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
31057548 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAAT-TGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT-TATA
31057612 TATGTGATAAGGCCTAATGGCCGATGTGATG
65 TATGTGATAAGGCCTAATGGCCGATGTGATG
31057643 AATGTGAAAGTGTATATATTTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATA--TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T-
31057708 TATATATGTGATAAGGCCTAATGGCCGATGTGATG
61 TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31057743 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT-TATA
31057808 TATGTGATAAGGCCTAATGGCCGATGTGATG
65 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
31057839 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAATGTG-T
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTT
* * *
31057903 GTATATGTGATAAGGCCGAATGGCCAATGTGATG
62 ATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
31057937 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATATGATGAATGTGAAAGTG-TAT
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTAT
* *
31058001 ATATGTGATAAGGCCGAATGGCCAATGTGATG
64 ATATGTGATAAGGCCTAATGGCCGATGTGATG
31058033 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TAT
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTAT
*
31058097 ATATGTGATAAGGCCTAATAGCCGATGTGATG
64 ATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31058129 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-TATAT
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTATAT
31058193 ATGTGATAAGGCCTAATGGCCGATGTGATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATG
*
31058223 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTG-TATAT
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTATAT
* * * * * *
31058287 ATGTGACAGGGCCGAGTGGCCAACGTGATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATG
* *
31058317 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
31058344 CCCCGAAGGG
Statistics
Matches: 755, Mismatches: 32, Indels: 20
0.94 0.04 0.02
Matches are distributed among these distances:
94 191 0.25
95 72 0.10
96 270 0.36
97 21 0.03
98 101 0.13
100 100 0.13
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (95 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:31058600 original size:37 final size:37
Alignment explanation
Indices: 31058462--31058599 Score: 240
Period size: 37 Copynumber: 3.7 Consensus size: 37
31058452 CCGAGCTCTA
31058462 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
31058499 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
31058536 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* * *
31058573 AAGACCCGATAACTTCATGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATT
31058600 TCGTCTGAGC
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:31082382 original size:44 final size:42
Alignment explanation
Indices: 31082355--31082458 Score: 145
Period size: 44 Copynumber: 2.4 Consensus size: 42
31082345 AATTGAAATG
*
31082355 GCACTAAGTGTGCAGAATCGTTCTAGCTTTGGCTAACCCTTAAA
1 GCACTAAGTGTGCAGAATCGTTCTAGCTTTAGCTAA--CTTAAA
* *
31082399 GCACTAAGTGTGCAGAATCGTTTTAGCTTTGGCTAACCCTTAAA
1 GCACTAAGTGTGCAGAATCGTTCTAGCTTTAGCTAA--CTTAAA
31082443 GCACTAAGTGTGCAGA
1 GCACTAAGTGTGCAGA
31082459 TGTTAAAGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (42 bp):
GCACTAAGTGTGCAGAATCGTTCTAGCTTTAGCTAACTTAAA
Found at i:31096173 original size:41 final size:41
Alignment explanation
Indices: 31096100--31096330 Score: 250
Period size: 41 Copynumber: 5.7 Consensus size: 41
31096090 AATACTTAAT
* * * * *
31096100 ATCTCACACACTAAGTGTCGTACATAGCCGAAGCTATCTCG
1 ATCTCGCACACTAAGTGCCATATATAGTCGAAGCTATCTCG
* * *
31096141 ATCTTGCACACTGAGTGCCATATATAGTCGAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCATATATAGTCGAAGCTATCTCG
* * *
31096182 ATCTCGCACACTAAGTGCTAGATGTAGTCGAAGCTATCTCG
1 ATCTCGCACACTAAGTGCCATATATAGTCGAAGCTATCTCG
* ** * *
31096223 ATCTTGCACACTAAGTGGTATATGTAGCCGAAGCTATCTCG
1 ATCTCGCACACTAAGTGCCATATATAGTCGAAGCTATCTCG
*
31096264 ATCTCGCACACTAAGTGCCATATATA-TCTGAAGCTATGTC-
1 ATCTCGCACACTAAGTGCCATATATAGTC-GAAGCTATCTCG
** * *
31096304 AAATCACACACTAAGTGCCACATATAG
1 ATCTCGCACACTAAGTGCCATATATAG
31096331 CTGAATTGTC
Statistics
Matches: 160, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
40 23 0.14
41 137 0.86
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCATATATAGTCGAAGCTATCTCG
Found at i:31107298 original size:11 final size:12
Alignment explanation
Indices: 31107266--31107307 Score: 54
Period size: 11 Copynumber: 3.7 Consensus size: 12
31107256 ATTTCAACAT
31107266 ATAAATAAAGATA
1 ATAAATAAA-ATA
31107279 A-AAATAAAATA
1 ATAAATAAAATA
31107290 ATAAA-AAAATA
1 ATAAATAAAATA
31107301 A-AAATAA
1 ATAAATAA
31107308 TAGGTGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 3 0.11
11 13 0.48
12 10 0.37
13 1 0.04
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (12 bp):
ATAAATAAAATA
Found at i:31107304 original size:17 final size:16
Alignment explanation
Indices: 31107278--31107309 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
31107268 AAATAAAGAT
31107278 AAAAATAAAATAATAA
1 AAAAATAAAATAATAA
31107294 AAAAATAAAAATAATA
1 AAAAAT-AAAATAATA
31107310 GGTGTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAAATAAAATAATAA
Found at i:31108911 original size:46 final size:46
Alignment explanation
Indices: 31108861--31108989 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
31108851 TGATTGAGCA
*
31108861 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
31108907 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
31108953 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31108990 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:31109341 original size:22 final size:22
Alignment explanation
Indices: 31109315--31109358 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
31109305 TACATATGAA
31109315 CTTACTAAGCATTTATGCTTAC
1 CTTACTAAGCATTTATGCTTAC
31109337 CTTACTAAGCATTTATGCTTAC
1 CTTACTAAGCATTTATGCTTAC
31109359 TCCCTCCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (22 bp):
CTTACTAAGCATTTATGCTTAC
Found at i:31115500 original size:27 final size:27
Alignment explanation
Indices: 31115470--31115621 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
31115460 ATATTAAGTC
* *
31115470 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
31115497 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
31115525 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
31115552 CGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
31115579 CGCACACTTAGTGCTACATAGTCCAACT
1 CGCACACTTAGTGCTACATAGT-CAACT
*
31115607 CGAACACTTAGTGCT
1 CGCACACTTAGTGCT
31115622 GTACAATTTA
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
27 70 0.61
28 44 0.39
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:31115538 original size:55 final size:54
Alignment explanation
Indices: 31115470--31115621 Score: 223
Period size: 55 Copynumber: 2.8 Consensus size: 54
31115460 ATATTAAGTC
* *
31115470 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATC-AACT
* * * *
31115525 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
*
31115579 CGCACACTTAGTGCTACATAGTCCAACTCGAACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGT-CAACTCGCACACTTAGTGCT
31115622 GTACAATTTA
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 25 0.29
55 62 0.71
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:31115607 original size:82 final size:82
Alignment explanation
Indices: 31115470--31115621 Score: 241
Period size: 82 Copynumber: 1.9 Consensus size: 82
31115460 ATATTAAGTC
* * *
31115470 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGAACACTTA
31115535 GTGCTACATAGTCAATT
66 GTGCTACATAGTCAATT
* * * *
31115552 CGCACACTTAGTGCAACATAGTCAATTCGCACACTTAGTGCTACATAGTCCAACTCGAACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGAACACTTA
31115617 GTGCT
66 GTGCT
31115622 GTACAATTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 63 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGAACACTTA
GTGCTACATAGTCAATT
Found at i:31133441 original size:13 final size:13
Alignment explanation
Indices: 31133423--31133452 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
31133413 CCACTAACAC
31133423 ATTAGACTTACGA
1 ATTAGACTTACGA
31133436 ATTAGACTTACGA
1 ATTAGACTTACGA
31133449 ATTA
1 ATTA
31133453 ACGATAACTA
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:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
ATTAGACTTACGA
Found at i:31133474 original size:31 final size:31
Alignment explanation
Indices: 31133436--31133496 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
31133426 AGACTTACGA
31133436 ATTAGACTTACGAATTAACGATAACTAACAC
1 ATTAGACTTACGAATTAACGATAACTAACAC
*
31133467 ATTAGACTTACGAATTAATGATAACTAACA
1 ATTAGACTTACGAATTAACGATAACTAACA
31133497 TAAATCCACG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.28
Consensus pattern (31 bp):
ATTAGACTTACGAATTAACGATAACTAACAC
Found at i:31133625 original size:27 final size:27
Alignment explanation
Indices: 31133595--31133786 Score: 276
Period size: 27 Copynumber: 7.1 Consensus size: 27
31133585 ACGTTTATTT
* * *
31133595 TACCCTAGAAGGGTATCTCAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
* *
31133622 TACCCTACAAGGGTATTTCAGTATTTC
1 TACCCTACAGGGGTATTTCAGTAATTC
* * *
31133649 TACCCTACAAGGGTATCTCGGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
*
31133676 TATCCTACAGGGGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
*
31133703 TACCCTACAGGGGGATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
*
31133730 TACCCTACAGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
*
31133757 TACCTTACAGGGGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
31133784 TAC
1 TAC
31133787 AACTTATCCA
Statistics
Matches: 149, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 149 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCAGTAATTC
Found at i:31136134 original size:43 final size:42
Alignment explanation
Indices: 31136086--31136250 Score: 154
Period size: 43 Copynumber: 3.9 Consensus size: 42
31136076 AGCTCGTATA
*
31136086 ATGCCAACGTCCCAGATATGGTCTCACATGTAATCAAATAAGG
1 ATGCCAACGTCCCAGATATGGTCTTACATGTAATCAAAT-AGG
* * * * *
31136129 ATGCC-ACTGTCTCAGATAGGGTCTTACACGAAATCAAATATG
1 ATGCCAAC-GTCCCAGATATGGTCTTACATGTAATCAAATAGG
* * *
31136171 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCTCAAAT-CG
1 ATGCCAACGTCCCAGATATGGTCTTACATGT-AA--TCAAATAGG
* ** *
31136215 ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCA
1 ATGCCAACGTCCCAGATATGGTCTTACATGTAATCA
31136251 CATATCGAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.03
42 27 0.26
43 36 0.35
44 30 0.29
45 6 0.06
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGATATGGTCTTACATGTAATCAAATAGG
Found at i:31141913 original size:7 final size:7
Alignment explanation
Indices: 31141901--31141938 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
31141891 AAATTAAAGT
31141901 AAAATCC
1 AAAATCC
31141908 AAAATCC
1 AAAATCC
*
31141915 AAAGTCC
1 AAAATCC
31141922 ACAAA-CC
1 A-AAATCC
31141929 AAAATCC
1 AAAATCC
31141936 AAA
1 AAA
31141939 CAGTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 3 0.11
7 22 0.81
8 2 0.07
ACGTcount: A:0.58, C:0.29, G:0.03, T:0.11
Consensus pattern (7 bp):
AAAATCC
Found at i:31144711 original size:50 final size:49
Alignment explanation
Indices: 31144555--31144778 Score: 163
Period size: 46 Copynumber: 4.8 Consensus size: 49
31144545 TTCTTTGTGT
* *
31144555 GCCAGTGTAAGA-CATGTATGGGACAT-GCATCGGC-CTCGA-G-ATGTAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTGATGAATG--A
* ** * *
31144601 GCCAGTGAAAGA-CATGTCTGGGACA-CACATTGGCTAC--G-TG-ATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACTTGATGAATGA
* *
31144645 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-TGAT-ACGTGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTGATGA-ATGA
** * *
31144693 GAACTTGTGTAAGACCATGTCTGGGAAATGGCATC--AACTTGATGAATGA
1 G--CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTGATGAATGA
*
31144742 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
31144779 TTATACCCTA
Statistics
Matches: 139, Mismatches: 23, Indels: 29
0.73 0.12 0.15
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 41 0.29
47 29 0.21
48 6 0.04
49 9 0.06
50 29 0.21
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (49 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTGATGAATGA
Found at i:31144771 original size:47 final size:48
Alignment explanation
Indices: 31144647--31144775 Score: 147
Period size: 50 Copynumber: 2.7 Consensus size: 48
31144637 CGTGATGTGT
* *
31144647 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATACGTGAGAAC
1 CAGTGTAAGACCATGTCTGGGACATGGCATC-GAACTGATACATGAG-AC
** *
31144697 TTGTGTAAGACCATGTCTGGGAAATGGCATC-AACTTGATGA-ATGAG-C
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGAAC-TGAT-ACATGAGAC
*
31144744 CAGTGTAAGACCATGTTTGGGACATGGCATCG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCG
31144776 GCATTATACC
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
47 28 0.42
48 2 0.03
49 8 0.12
50 29 0.43
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGAACTGATACATGAGAC
Found at i:31150056 original size:6 final size:6
Alignment explanation
Indices: 31150045--31150077 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
31150035 AAATTTTGAA
*
31150045 AAAAAT AAAAAT AAAAAT AAAAGT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
31150078 TTCTATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:31152294 original size:22 final size:23
Alignment explanation
Indices: 31152261--31152303 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
31152251 TTGCCGAAAT
31152261 TTATCAAAATTAATCAAAATTTA
1 TTATCAAAATTAATCAAAATTTA
*
31152284 TTAT-AAAATTAATTAAAATT
1 TTATCAAAATTAATCAAAATT
31152304 AAAAATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
TTATCAAAATTAATCAAAATTTA
Found at i:31153634 original size:34 final size:35
Alignment explanation
Indices: 31153596--31153673 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 35
31153586 AGTAACAGTC
* *
31153596 CAGTAACAGTTATG-GCCTTAGCCCAATACAGTAT
1 CAGTAACAGATATGAGCCTTAGCCCAATACAGTAG
* * *
31153630 CAGTAGCA-ATGTGAGCCTTAGCCCATTACAGTAG
1 CAGTAACAGATATGAGCCTTAGCCCAATACAGTAG
*
31153664 CTGTAACAGA
1 CAGTAACAGA
31153674 AATGCAATCA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
33 3 0.09
34 31 0.89
35 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (35 bp):
CAGTAACAGATATGAGCCTTAGCCCAATACAGTAG
Found at i:31155865 original size:13 final size:13
Alignment explanation
Indices: 31155847--31155872 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31155837 GCTCGACAGG
31155847 GACACGCCCGTGT
1 GACACGCCCGTGT
31155860 GACACGCCCGTGT
1 GACACGCCCGTGT
31155873 ACGATTTCTT
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:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:31168501 original size:28 final size:29
Alignment explanation
Indices: 31168470--31168530 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
31168460 GGGAGCATGA
* *
31168470 ATAT-AAGGTGATTTGGGCCTAACGGGTC
1 ATATAAAGATGATTTGGGCCTAACGGGCC
*
31168498 ATATAAAGATGATTTGGGCCTAATGGGCC
1 ATATAAAGATGATTTGGGCCTAACGGGCC
31168527 ATAT
1 ATAT
31168531 GAATATGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (29 bp):
ATATAAAGATGATTTGGGCCTAACGGGCC
Found at i:31168538 original size:29 final size:29
Alignment explanation
Indices: 31168478--31168588 Score: 98
Period size: 29 Copynumber: 3.8 Consensus size: 29
31168468 GAATATAAGG
* * * * *
31168478 TGATTTGGGCCTAACGGGTCATATAAAGA
1 TGATTTGAGCCTAATGGGCCATATGAATA
*
31168507 TGATTTGGGCCTAATGGGCCATATGAATA
1 TGATTTGAGCCTAATGGGCCATATGAATA
* * * * *
31168536 TGAATTCAGCCTGATGGTCCATATGAATG
1 TGATTTGAGCCTAATGGGCCATATGAATA
*
31168565 TGAATTT-AGCCTGATGGGCCATAT
1 TG-ATTTGAGCCTAATGGGCCATAT
31168589 AAATGAAACT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
29 66 0.96
30 3 0.04
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (29 bp):
TGATTTGAGCCTAATGGGCCATATGAATA
Found at i:31168593 original size:29 final size:29
Alignment explanation
Indices: 31168515--31168593 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
31168505 GATGATTTGG
* *
31168515 GCCTAATGGGCCATATGAATATGAATTCA
1 GCCTGATGGGCCATATGAATGTGAATTCA
* *
31168544 GCCTGATGGTCCATATGAATGTGAATTTA
1 GCCTGATGGGCCATATGAATGTGAATTCA
*
31168573 GCCTGATGGGCCATATAAATG
1 GCCTGATGGGCCATATGAATG
31168594 AAACTGGGCC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (29 bp):
GCCTGATGGGCCATATGAATGTGAATTCA
Found at i:31170940 original size:28 final size:28
Alignment explanation
Indices: 31170900--31171023 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
31170890 ATATTAAGTC
* *
31170900 CGCACACTCAGTGCTATGTAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
31170928 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
31170956 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
31170984 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
31171013 CGCACACTTAG
1 CGCACACTTAG
31171024 CGCCAATCTC
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 73 0.82
29 16 0.18
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:31174403 original size:18 final size:19
Alignment explanation
Indices: 31174370--31174418 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
31174360 CAGTAGTGGG
31174370 CCAAGGTGGTGCTCA-GCCA
1 CCAAGG-GGTGCTCACGCCA
*
31174389 CCAAGGGGTGGTCAGCTGCCA
1 CCAAGGGGTGCTCA-C-GCCA
31174410 CCAAGGGGT
1 CCAAGGGGT
31174419 CGTGGGTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 7 0.27
19 6 0.23
21 13 0.50
ACGTcount: A:0.20, C:0.29, G:0.37, T:0.14
Consensus pattern (19 bp):
CCAAGGGGTGCTCACGCCA
Found at i:31177238 original size:40 final size:40
Alignment explanation
Indices: 31177049--31177231 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
31177039 GAATGATGTT
* * * *
31177049 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATC
* * * *
31177089 CAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATC
* *
31177129 TGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
*
31177168 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATC
*
31177208 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
31177232 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 33 0.28
40 76 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:31177253 original size:79 final size:79
Alignment explanation
Indices: 31177100--31177264 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
31177090 AGACTAAGAT
* * **
31177100 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
31177165 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
31177179 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
31177242 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
31177258 CCGAAGG
1 CCGAAGG
31177265 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:31184577 original size:40 final size:40
Alignment explanation
Indices: 31184533--31184839 Score: 553
Period size: 40 Copynumber: 7.7 Consensus size: 40
31184523 GCAAACACAT
* *
31184533 TTGCCTTCGGGTCTTAGCCCGAACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31184573 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31184613 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31184653 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31184693 TTGCCTTCGGGTCTTAG-CCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31184732 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31184772 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31184812 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
31184840 TCCAATGCTC
Statistics
Matches: 258, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
39 38 0.15
40 220 0.85
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:31184764 original size:119 final size:120
Alignment explanation
Indices: 31184533--31184839 Score: 580
Period size: 119 Copynumber: 2.6 Consensus size: 120
31184523 GCAAACACAT
* * *
31184533 TTGCCTTCGGGTCTTAGCCCGAACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
31184598 TATCAACTCGCATAATTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
66 TATCAACTCGCATAATTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
31184653 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAG-CCGGATA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
31184717 TATCAACTCGCATAATTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
66 TATCAACTCGCATAATTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
31184772 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
31184837 TAT
66 TAT
31184840 TCCAATGCTC
Statistics
Matches: 183, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
119 119 0.65
120 64 0.35
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (120 bp):
TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
TATCAACTCGCATAATTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
Found at i:31197425 original size:40 final size:40
Alignment explanation
Indices: 31197381--31197741 Score: 564
Period size: 40 Copynumber: 9.1 Consensus size: 40
31197371 CGAATACACG
* * * * *
31197381 TCACTAGCATGATTGCACTTCGGGACCTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
** * * *
31197421 TCACTAGCACGAATGCTCTTCGGGGTTTAGCACAGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
31197461 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
31197501 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
31197541 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
31197581 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCAGG-TACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCC-GGATACA
*
31197621 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
31197661 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
31197701 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
31197740 TC
1 TC
31197742 GTCGAGACCT
Statistics
Matches: 300, Mismatches: 19, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
39 6 0.02
40 292 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:31197837 original size:38 final size:38
Alignment explanation
Indices: 31197795--31197869 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
31197785 GAATTTTAAT
*
31197795 CCGGACATAATCTCTGT-ACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCT-TCACATAGCCAGCGGGTCTTTAC
* *
31197833 CCGGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
31197870 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTAC
Found at i:31200355 original size:22 final size:22
Alignment explanation
Indices: 31200327--31200448 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
31200317 TTCCACATCC
31200327 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
31200349 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
31200373 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
31200396 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
31200420 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
31200443 ATCACA
1 ATCACA
31200449 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:31200362 original size:47 final size:48
Alignment explanation
Indices: 31200299--31200648 Score: 505
Period size: 47 Copynumber: 7.3 Consensus size: 48
31200289 CCCTTCGGGA
* * *
31200299 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTGTTCACATTCATCACATTGGCCATTCGGC
31200346 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTGTTCACATTCATCACATTGGCCATTCGGC
* *
31200393 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTGTTCACATTCATCACATTGGCCATTCGGC
* *
31200440 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTGTTCACATTCATCACATTGGCCATTCGGC
* *
31200487 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTGTTCACATTCATCACATTGGCCATTCGGC
31200534 CTTATCACGCATATATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCA--CATATATACAC-TGTTCACATTCATCACATTGGCCATTCGGC
* *
31200585 CTTATCACGCATATATATACT-TTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACACTGTTCACATTCATCACATTGGCCATTCGGC
*
31200634 CCTATCACATATATA
1 CTTATCACATATATA
31200649 TACTTGTACA
Statistics
Matches: 284, Mismatches: 14, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 192 0.68
49 41 0.14
50 1 0.00
51 49 0.17
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (48 bp):
CTTATCACATATATACACTGTTCACATTCATCACATTGGCCATTCGGC
Found at i:31204354 original size:16 final size:16
Alignment explanation
Indices: 31204319--31204361 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
31204309 GTAGATCGGC
* *
31204319 AAAAGCTAAAATGCTA
1 AAAAGCTGAAATGCCA
*
31204335 AAAAGCTGAAATGCCG
1 AAAAGCTGAAATGCCA
*
31204351 AAAAGCCGAAA
1 AAAAGCTGAAA
31204362 GTTTAACTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.53, C:0.16, G:0.19, T:0.12
Consensus pattern (16 bp):
AAAAGCTGAAATGCCA
Found at i:31204647 original size:29 final size:29
Alignment explanation
Indices: 31204615--31204689 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
31204605 AAAGGTGATT
*
31204615 TGGGCCATATGAATATGAATTCGGGCTGA
1 TGGGCCATATGAATATGAATTCGGCCTGA
31204644 TGGGCCATATGAATAT-ATATTCGGCCTGA
1 TGGGCCATATGAATATGA-ATTCGGCCTGA
*
31204673 TAGGCCATAT-AA-ATGAA
1 TGGGCCATATGAATATGAA
31204690 GCTGGGTCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 3 0.07
28 4 0.10
29 35 0.83
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (29 bp):
TGGGCCATATGAATATGAATTCGGCCTGA
Found at i:31209581 original size:47 final size:47
Alignment explanation
Indices: 31209525--31209669 Score: 177
Period size: 47 Copynumber: 3.1 Consensus size: 47
31209515 TTAGGATTTT
31209525 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
31209572 GTGTTATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
31209619 ATGTGGTGAATATGAACATGC--ATATGTGGTAAAGCCAAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
31209664 ATGTGA
1 ATGTGA
31209670 AATATATATA
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
45 23 0.28
47 58 0.72
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:31209697 original size:50 final size:50
Alignment explanation
Indices: 31209628--31209774 Score: 235
Period size: 50 Copynumber: 3.0 Consensus size: 50
31209618 AATGTGGTGA
* *
31209628 ATATGA-ACATGCATATGTGGTAAAGCCAAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
31209677 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
* *
31209727 ATATGAGATATGTATATGTGGTAAAGCCGAATGG-CTAGTGTGAAATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATGTGAAATAT
31209775 GTAGGCGATG
Statistics
Matches: 92, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
49 7 0.08
50 85 0.92
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (50 bp):
ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
Found at i:31210032 original size:37 final size:37
Alignment explanation
Indices: 31209924--31210032 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
31209914 GGAAATATAT
*
31209924 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
31209961 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
31209998 TCCGGGTAAGACCTGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
31210033 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:31213037 original size:47 final size:47
Alignment explanation
Indices: 31212959--31213353 Score: 628
Period size: 47 Copynumber: 8.3 Consensus size: 47
31212949 CCCTTCGGGA
* * * * * *
31212959 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31213006 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31213053 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31213100 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31213147 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31213194 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31213243 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31213292 CTTATCACATATATACGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATA--CACTTTCACATTCATCACATCGGCCATTAGGC
31213341 CTTATCACATATA
1 CTTATCACATATA
31213354 CATACATTCA
Statistics
Matches: 330, Mismatches: 14, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
47 191 0.58
49 139 0.42
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31216884 original size:40 final size:40
Alignment explanation
Indices: 31216839--31217195 Score: 516
Period size: 40 Copynumber: 8.9 Consensus size: 40
31216829 CGAATACACG
* * * *
31216839 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
31216879 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
31216919 TCACTAGCACGAATGCTCTTCAGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
31216959 TCACTAGCATGAATGCTCTTCGTGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
31216999 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
31217039 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
31217079 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
31217119 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
31217159 TCACTAGCATGAATGCTCTTTGGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
31217196 CATTGTCGAG
Statistics
Matches: 284, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 284 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:31217322 original size:38 final size:38
Alignment explanation
Indices: 31217253--31217327 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
31217243 GAATTTTAAT
*
31217253 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
31217291 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
31217328 AACTCGTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:31219541 original size:47 final size:47
Alignment explanation
Indices: 31219463--31219917 Score: 685
Period size: 47 Copynumber: 9.6 Consensus size: 47
31219453 CCCTTCGGGA
* * * * * *
31219463 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31219510 CCTGTCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31219557 CTCATCACATATATACACTTTCACATTTATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31219604 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31219651 CTTATCACTTATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31219700 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31219747 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31219794 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31219843 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31219892 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
31219918 CACAATTATC
Statistics
Matches: 376, Mismatches: 26, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
47 240 0.64
49 136 0.36
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31219693 original size:96 final size:94
Alignment explanation
Indices: 31219463--31219917 Score: 685
Period size: 96 Copynumber: 4.8 Consensus size: 94
31219453 CCCTTCGGGA
* * * * * * * *
31219463 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
31219528 TTTCACATTCATCACGTCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * * *
31219557 CTCATCACATATATACACTTTCACATTTATCACATCGGCTATTAGGCCTTATCACATATATACAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
31219622 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
31219651 CTTATCACTTATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
31219716 ACTTTCACATTCATCACATTGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
31219747 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
31219812 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
31219843 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
31219908 ACATTCACAT
64 ACTTTCACAT
31219918 CACAATTATC
Statistics
Matches: 331, Mismatches: 24, Indels: 10
0.91 0.07 0.03
Matches are distributed among these distances:
94 133 0.40
96 158 0.48
98 40 0.12
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:31219719 original size:143 final size:142
Alignment explanation
Indices: 31219463--31219917 Score: 714
Period size: 143 Copynumber: 3.2 Consensus size: 142
31219453 CCCTTCGGGA
* * * * * * *
31219463 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC-ATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACTATATATACA
* * * *
31219527 CTTTCACATTCATCACGTCGGCCATTAGGCCTCATCACATATATACACTTTCACATTTATCACAT
66 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
*
31219592 CGGCTATTAGGC
131 CGGCCATTAGGC
* *
31219604 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTTATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC-TATATATAC
31219669 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
31219734 TTGGCCATTAGGC
130 TCGGCCATTAGGC
31219747 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC-TATATATAC
31219812 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATTCATCA
65 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATAT--ACACTTTCACATTCATCA
31219877 CATCGGCCATTAGGC
128 CATCGGCCATTAGGC
* *
31219892 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
31219918 CACAATTATC
Statistics
Matches: 289, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
141 46 0.16
143 187 0.65
145 56 0.19
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (142 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACTATATATACA
CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGC
Found at i:31219756 original size:22 final size:22
Alignment explanation
Indices: 31219728--31219803 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
31219718 TTTCACATTC
31219728 ATCACATTGGCCATTAGGCCTT
1 ATCACATTGGCCATTAGGCCTT
*** *** *
31219750 ATCACATATATACACTTTCACATT
1 ATCACAT-TGGCCA-TTAGGCCTT
31219774 CATCACATTGGCCATTAGGCCTT
1 -ATCACATTGGCCATTAGGCCTT
31219797 ATCACAT
1 ATCACAT
31219804 ATATATACAC
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTAGGCCTT
Found at i:31226672 original size:36 final size:37
Alignment explanation
Indices: 31226565--31226708 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
31226555 GCTCAGACGA
* * * *
31226565 AATCTCCACATGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
31226602 AATCTCCACACGTAGTCATCGGGTCTTACTCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
31226639 AATCTCCACACGTAGTCATC-GGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
31226675 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
31226709 ATATATTTCC
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
36 35 0.35
37 65 0.65
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:31226685 original size:73 final size:74
Alignment explanation
Indices: 31226565--31226708 Score: 236
Period size: 73 Copynumber: 2.0 Consensus size: 74
31226555 GCTCAGACGA
* *
31226565 AATCTCCACATGAAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTA
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTA
*
31226630 CTCGGACAT
66 CCCGGACAT
* *
31226639 AATCTCCACACGTAGTCATC-GGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTTA
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTA
31226703 CCCGGA
66 CCCGGA
31226709 ATATATTTCC
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 48 0.74
74 17 0.26
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (74 bp):
AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTA
CCCGGACAT
Found at i:31227062 original size:46 final size:47
Alignment explanation
Indices: 31226919--31227355 Score: 509
Period size: 47 Copynumber: 9.1 Consensus size: 47
31226909 ACATGTTTCG
* * * **
31226919 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * * * *
31226966 CATCGGCCATTCAGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
31227013 CATTGGCCATCCGGCCTTATCACACA-ACGCATGTTCACACTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
31227059 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
***
31227112 CATTGGCCATTCGGCCTTATCACACATATATATACGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT---GTTCACATTCATCA
31227162 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACA-TCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
31227208 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ***
31227255 CATTGGCCATTGGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
* *
31227306 CATTGGCAATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
31227353 CAT
1 CAT
31227356 AAAATCCTAA
Statistics
Matches: 338, Mismatches: 37, Indels: 30
0.83 0.09 0.07
Matches are distributed among these distances:
46 84 0.25
47 126 0.37
48 1 0.00
50 44 0.13
51 43 0.13
52 2 0.01
53 38 0.11
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Done.