Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 150 of 276
Found at i:48853689 original size:37 final size:37
Alignment explanation
Indices: 48853642--48853724 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
48853632 ATTCTGTTAC
* *
48853642 CTGATACTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
* * *
48853679 CTGGTTCTGATTCTGATTCTGTTACTTGATACTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
48853716 CTGATTCTG
1 CTGATTCTG
48853725 TTACCTAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
Found at i:48853715 original size:25 final size:25
Alignment explanation
Indices: 48853685--48853749 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
48853675 GATTCTGGTT
* *
48853685 CTGATTCTGATTCTGTTACTTGATA
1 CTGATTCTGATTCTGTTACCTAATA
*
48853710 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
*
48853735 CTAATTCTGATTCTG
1 CTGATTCTGATTCTG
48853750 ATTTTGATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:48853718 original size:62 final size:62
Alignment explanation
Indices: 48853620--48853786 Score: 280
Period size: 62 Copynumber: 2.7 Consensus size: 62
48853610 TTGCATTCAT
* *
48853620 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTG
*
48853682 GTTCTGATTCTGATTCTGTTACTTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACTTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTG
* * *
48853744 ATTCTGATTTTGATTCTGTCACTTGATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTTGATACTGATTCTGATTCTG
48853787 ATTCTCATTT
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 98 1.00
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.49
Consensus pattern (62 bp):
ATTCTGATTCTGATTCTGTTACTTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTG
Found at i:48853751 original size:37 final size:37
Alignment explanation
Indices: 48853705--48853791 Score: 120
Period size: 37 Copynumber: 2.4 Consensus size: 37
48853695 TTCTGTTACT
* *
48853705 TGATACTGATTCTGATTCTGTTACCTAATTCTAATTC
1 TGATTCTGATTCTGATTCTGTCACCTAATTCTAATTC
* * * *
48853742 TGATTCTGATTTTGATTCTGTCACTTGATTCTGATTC
1 TGATTCTGATTCTGATTCTGTCACCTAATTCTAATTC
48853779 TGATTCTGATTCT
1 TGATTCTGATTCT
48853792 CATTTTGATT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (37 bp):
TGATTCTGATTCTGATTCTGTCACCTAATTCTAATTC
Found at i:48853800 original size:18 final size:18
Alignment explanation
Indices: 48853620--48853803 Score: 90
Period size: 19 Copynumber: 9.9 Consensus size: 18
48853610 TTGCATTCAT
*
48853620 ATTCTGATTCTGATTCTG
1 ATTCTCATTCTGATTCTG
* *
48853638 -TTACCTGATACTGATTCTG
1 ATT--CTCATTCTGATTCTG
* *
48853657 ATTCT-GTTACCTAATTCTG
1 ATTCTCATT--CTGATTCTG
**
48853676 ATTCTGGTTCTGATTCTG
1 ATTCTCATTCTGATTCTG
* *
48853694 ATTCT-GTTACTTGATACTG
1 ATTCTCATT-C-TGATTCTG
* *
48853713 ATTCTGATTCTG-TTACCTA
1 ATTCTCATTCTGATT--CTG
*
48853732 ATTCTAATTCTGATTCTG
1 ATTCTCATTCTGATTCTG
* * *
48853750 ATTTTGATTCTG-TCACTTG
1 ATTCTCATTCTGAT-TC-TG
*
48853769 ATTCTGATTCTGATTCTG
1 ATTCTCATTCTGATTCTG
*
48853787 ATTCTCATTTTGATTCT
1 ATTCTCATTCTGATTCT
48853804 TGTTTTGATA
Statistics
Matches: 133, Mismatches: 18, Indels: 30
0.73 0.10 0.17
Matches are distributed among these distances:
17 8 0.06
18 48 0.36
19 67 0.50
20 10 0.08
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.49
Consensus pattern (18 bp):
ATTCTCATTCTGATTCTG
Found at i:48856943 original size:20 final size:20
Alignment explanation
Indices: 48856917--48856983 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
48856907 ATTTTGATAT
48856917 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
*
48856937 TCATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
48856957 ACATGATATGTATGGTATGC
1 ACATGATATGTATGATATGC
48856977 ACATGAT
1 ACATGAT
48856984 GTATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:48856944 original size:11 final size:11
Alignment explanation
Indices: 48856928--48856983 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
48856918 CATGATTGAT
48856928 ATGATATGCTC
1 ATGATATGCTC
48856939 ATGATATG-T-
1 ATGATATGCTC
*
48856948 ATGATATGCAC
1 ATGATATGCTC
48856959 ATGATATG-T-
1 ATGATATGCTC
* *
48856968 ATGGTATGCAC
1 ATGATATGCTC
48856979 ATGAT
1 ATGAT
48856984 GTATTCATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
9 15 0.42
10 1 0.03
11 20 0.56
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (11 bp):
ATGATATGCTC
Found at i:48857131 original size:25 final size:26
Alignment explanation
Indices: 48857033--48857156 Score: 180
Period size: 26 Copynumber: 4.8 Consensus size: 26
48857023 GAGGAAGTGC
48857033 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
48857059 AAAAACGGCTTATGCCCCAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTATTG
*
48857086 AAAAGGGCTTATGCCCCAGTTTTTTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
48857112 AAAAGGGATT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
48857137 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
48857157 ATTAAAGAGG
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
25 31 0.35
26 33 0.37
27 25 0.28
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:48863313 original size:27 final size:27
Alignment explanation
Indices: 48863282--48863459 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
48863272 TAAATTGTAC
48863282 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
48863309 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48863335 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
48863363 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
48863391 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48863418 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
48863445 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48863460 GACTCAATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:48863396 original size:82 final size:81
Alignment explanation
Indices: 48863283--48863438 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
48863273 AAATTGTACA
*
48863283 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
48863347 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
48863364 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
48863429 TGCGAGTTGA
65 TGCGAATTGA
48863439 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:48863450 original size:82 final size:81
Alignment explanation
Indices: 48863279--48863459 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
48863269 GATTAAATTG
*
48863279 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
48863344 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
48863360 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
48863424 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
48863442 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
48863460 GACTCAATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:48865866 original size:45 final size:45
Alignment explanation
Indices: 48865796--48865881 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
48865786 AGATACTCGG
* * *
48865796 TGGATTCAGCAAATAACAACCACCTTATTAATCAATGATGTCCGA
1 TGGAATCAGCAAATAACAACAACCTTACTAATCAATGATGTCCGA
* *
48865841 TGGAATCAGCACATAGCAACAACCTTACTAATCAATGATGT
1 TGGAATCAGCAAATAACAACAACCTTACTAATCAATGATGT
48865882 TCGGTTCACA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (45 bp):
TGGAATCAGCAAATAACAACAACCTTACTAATCAATGATGTCCGA
Found at i:48865986 original size:51 final size:51
Alignment explanation
Indices: 48865888--48866001 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 51
48865878 ATGTTCGGTT
* * *
48865888 CACATAGTAGCCTATATATAGTACTACACATATGACCATTACCATCCGATA
1 CACATAGTAGCCTACATATAGTACTACACAGATGACCATAACCATCCGATA
* * * * *
48865939 CACGTAGTAGCCTACATATAGTACTACACAGGTGATCGA-AACTATCCGGTA
1 CACATAGTAGCCTACATATAGTACTACACAGATGA-CCATAACCATCCGATA
*
48865990 CGCATAGTAGCC
1 CACATAGTAGCC
48866002 ATCACTTTCA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
51 50 0.96
52 2 0.04
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (51 bp):
CACATAGTAGCCTACATATAGTACTACACAGATGACCATAACCATCCGATA
Found at i:48866272 original size:30 final size:30
Alignment explanation
Indices: 48866232--48866288 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
48866222 AAAATCATAC
48866232 TTTCAAAAAATTAC-ATTTTTGCCCCTAAAG
1 TTTCAAAAAATTACGATTTTT-CCCCTAAAG
*
48866262 TTTCACAAAATTACGATTTTTCCCCTA
1 TTTCAAAAAATTACGATTTTTCCCCTA
48866289 TGCTCGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (30 bp):
TTTCAAAAAATTACGATTTTTCCCCTAAAG
Found at i:48871351 original size:45 final size:45
Alignment explanation
Indices: 48871282--48871367 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
48871272 AGATACTCGA
* *
48871282 TGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCTGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCTGG
48871327 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
48871368 TCGGTTCACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (45 bp):
TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCTGG
Found at i:48871553 original size:96 final size:96
Alignment explanation
Indices: 48871376--48871555 Score: 263
Period size: 96 Copynumber: 1.9 Consensus size: 96
48871366 GTTCGGTTCA
* * * *
48871376 CATAGTAGCCTACACATAGTACTACACATGTGACCATTACCATCTAATACATGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TACCATCCAATACACGTAGTAGCCTACA
48871441 CATAGTACTACACACGTGATCGAAACTACCCG
65 CATAGTACTACACACGTGATCGAAACTACCCG
* * **
48871473 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTACA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATACCA-TCCAATACACGTAGTAGCCTACA
48871537 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
48871556 CCATCACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
95 4 0.05
96 37 0.50
97 33 0.45
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (96 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCCAATACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATCGAAACTACCCG
Found at i:48871684 original size:10 final size:10
Alignment explanation
Indices: 48871665--48871696 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
48871655 CATTCGAGAA
48871665 TTTT-TCACT
1 TTTTATCACT
48871674 TTTTATCACT
1 TTTTATCACT
48871684 TTTTATCACT
1 TTTTATCACT
48871694 TTT
1 TTT
48871697 CTTTCTATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.16, C:0.19, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTTATCACT
Found at i:48871839 original size:30 final size:30
Alignment explanation
Indices: 48871798--48871854 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
48871788 AAAATAATAC
* *
48871798 TTTCCCAAAATTATGTTTTTGCCCCTAAAG
1 TTTCACAAAATTATGATTTTGCCCCTAAAG
48871828 TTTCACAAAATTATGATTTTGCCCCTA
1 TTTCACAAAATTATGATTTTGCCCCTA
48871855 TGCTCGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (30 bp):
TTTCACAAAATTATGATTTTGCCCCTAAAG
Found at i:48881147 original size:14 final size:14
Alignment explanation
Indices: 48881128--48881157 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
48881118 GTGTGTTTGG
48881128 AGAGTGTTTTGTTT
1 AGAGTGTTTTGTTT
48881142 AGAGTGTTTTGTTT
1 AGAGTGTTTTGTTT
48881156 AG
1 AG
48881158 GTATGTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (14 bp):
AGAGTGTTTTGTTT
Found at i:48894807 original size:17 final size:17
Alignment explanation
Indices: 48894759--48894808 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 17
48894749 CACCTGGCCG
*
48894759 TGTGTCACACAAGA-C-
1 TGTGTCACACATGACCA
*
48894774 TGTGTCAC-C-TAACCA
1 TGTGTCACACATGACCA
48894789 TGTGTCACACATGACCA
1 TGTGTCACACATGACCA
48894806 TGT
1 TGT
48894809 CACCTAGTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 1 0.04
14 2 0.07
15 16 0.57
16 1 0.04
17 8 0.29
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (17 bp):
TGTGTCACACATGACCA
Found at i:48895133 original size:30 final size:30
Alignment explanation
Indices: 48895097--48895172 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
48895087 TGGTTGACAC
* * **
48895097 ATCCCTTTTCGTAATTCGATAATTGAAGTT
1 ATCCCTTTTCATAATTCGACAACCGAAGTT
* * *
48895127 ATCCCTTTTCATAGTTTGACAGCCGAAGTT
1 ATCCCTTTTCATAATTCGACAACCGAAGTT
48895157 ATCCCTTTTCATAATT
1 ATCCCTTTTCATAATT
48895173 TGATGGCCGC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGACAACCGAAGTT
Found at i:48895191 original size:30 final size:30
Alignment explanation
Indices: 48895157--48895410 Score: 150
Period size: 30 Copynumber: 8.5 Consensus size: 30
48895147 AGCCGAAGTT
* * *
48895157 ATCCCTTTTCATAATTTGATGGCCGCCACC
1 ATCCCTTTTCATAATTTGATAGTCGTCACC
* ** * *
48895187 ATCCCTTTTCATAGTTCAATGGTTGTCACC
1 ATCCCTTTTCATAATTTGATAGTCGTCACC
* *
48895217 A-CCCTTTTCATAATTTGATAG-C-TAAAGCT
1 ATCCCTTTTCATAATTTGATAGTCGT-CA-CC
* *
48895246 ATCCCCTTTT-ATAGA-TTGATAGTCGACGCC
1 AT-CCCTTTTCATA-ATTTGATAGTCGTCACC
*
48895276 ATCCCTTTTCATAGA-TTGATAG-C-TGAAGCC
1 ATCCCTTTTCATA-ATTTGATAGTCGT-CA-CC
* *
48895306 ATCCCTTTTCATAGA-TTGATAGCCG-AAGCC
1 ATCCCTTTTCATA-ATTTGATAGTCGTCA-CC
* * * *
48895336 ATCCTTTTTCATAGTTCGATCGTCGTCACC
1 ATCCCTTTTCATAATTTGATAGTCGTCACC
* * * *
48895366 ATCCCTTTTTATAGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATAGTCGTCACC
48895396 ATCCCTTTTCATAAT
1 ATCCCTTTTCATAAT
48895411 CGATAGCCAA
Statistics
Matches: 179, Mismatches: 31, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
27 1 0.01
28 1 0.01
29 26 0.15
30 140 0.78
31 11 0.06
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.37
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAGTCGTCACC
Found at i:48895253 original size:60 final size:60
Alignment explanation
Indices: 48895185--48895423 Score: 174
Period size: 60 Copynumber: 4.0 Consensus size: 60
48895175 ATGGCCGCCA
* * *
48895185 CCATCCCTTTTCATAG-TTCAATGGTTGTCACCA-CCCTTTTCATA-ATTTGATAGCTAAAG
1 CCATCCCTTTTCATAGATT-AATAGTCGACACCATCCCTTTTCATAGA-TTGATAGCTAAAG
* * * *
48895244 CTATCCCCTTTT-ATAGATTGATAGTCGACGCCATCCCTTTTCATAGATTGATAGCTGAAG
1 CCAT-CCCTTTTCATAGATTAATAGTCGACACCATCCCTTTTCATAGATTGATAGCTAAAG
* * * * *
48895304 CCATCCCTTTTCATAGATTGATAGCCGA-AGCCATCCTTTTTCATAG-TTCGATCGTCGT-CA-
1 CCATCCCTTTTCATAGATTAATAGTCGACA-CCATCCCTTTTCATAGATT-GATAG-C-TAAAG
* * * * * *
48895364 CCATCCCTTTTTATAG-TTCGATGGTCGTCACCATCCCTTTTCATA-ATCGATAGCCAAAG
1 CCATCCCTTTTCATAGATT-AATAGTCGACACCATCCCTTTTCATAGATTGATAGCTAAAG
48895423 C
1 C
48895424 TATTCCATTT
Statistics
Matches: 144, Mismatches: 22, Indels: 28
0.74 0.11 0.14
Matches are distributed among these distances:
58 2 0.01
59 32 0.22
60 105 0.73
61 4 0.03
62 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (60 bp):
CCATCCCTTTTCATAGATTAATAGTCGACACCATCCCTTTTCATAGATTGATAGCTAAAG
Found at i:48895396 original size:179 final size:179
Alignment explanation
Indices: 48895096--48895426 Score: 450
Period size: 179 Copynumber: 1.8 Consensus size: 179
48895086 ATGGTTGACA
* * ** * **
48895096 CATCCCTTTTCGTAATTCGATAATTGAAGTTATCCCTTTTCATAGTTTGACAGCCGAAGTTATCC
1 CATCCCTTTTCATAATTCGATAACTGAAGCCATCCCTTTTCATAGATTGACAGCCGAAGCCATCC
* * *
48895161 CTTTTCATAATTTGATGGCCGCCACCATCCCTTTTCATAGTTCAATGGTTGTCACCA-CCCTTTT
66 CTTTTCATAATTCGATCGCCGCCACCATCCCTTTTCATAGTTCAATGGTCGTCACCATCCCTTTT
* *
48895225 CATAATTTGATAGCTAAAGCTATCCCCTTTTATAGATTGATAGTCGACGC
131 CATAA-TCGATAGCCAAAGCTATCCCCTTTTATAGATTGATAGTCGACGC
* *
48895275 CATCCCTTTTCATAGATT-GATAGCTGAAGCCATCCCTTTTCATAGATTGATAGCCGAAGCCATC
1 CATCCCTTTTCATA-ATTCGATAACTGAAGCCATCCCTTTTCATAGATTGACAGCCGAAGCCATC
* * * * * *
48895339 CTTTTTCATAGTTCGATCGTCGTCACCATCCCTTTTTATAGTTCGATGGTCGTCACCATCCCTTT
65 CCTTTTCATAATTCGATCGCCGCCACCATCCCTTTTCATAGTTCAATGGTCGTCACCATCCCTTT
48895404 TCATAATCGATAGCCAAAGCTAT
130 TCATAATCGATAGCCAAAGCTAT
48895427 TCCATTTCAT
Statistics
Matches: 130, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
179 115 0.88
180 15 0.12
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (179 bp):
CATCCCTTTTCATAATTCGATAACTGAAGCCATCCCTTTTCATAGATTGACAGCCGAAGCCATCC
CTTTTCATAATTCGATCGCCGCCACCATCCCTTTTCATAGTTCAATGGTCGTCACCATCCCTTTT
CATAATCGATAGCCAAAGCTATCCCCTTTTATAGATTGATAGTCGACGC
Found at i:48903184 original size:16 final size:16
Alignment explanation
Indices: 48903163--48903214 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
48903153 TGAACACCAT
48903163 TAAACTCACAAATGAG
1 TAAACTCACAAATGAG
48903179 TAAACTCATC--A--A-
1 TAAACTCA-CAAATGAG
*
48903191 CAAACTCACAAATGAG
1 TAAACTCACAAATGAG
48903207 TAAACTCA
1 TAAACTCA
48903215 TCAACATCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
11 1 0.04
12 7 0.25
13 2 0.07
15 2 0.07
16 15 0.54
17 1 0.04
ACGTcount: A:0.50, C:0.23, G:0.08, T:0.19
Consensus pattern (16 bp):
TAAACTCACAAATGAG
Found at i:48903204 original size:28 final size:28
Alignment explanation
Indices: 48903164--48903220 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
48903154 GAACACCATT
48903164 AAACTCACAAATGAGTAAACTCATCAAC
1 AAACTCACAAATGAGTAAACTCATCAAC
48903192 AAACTCACAAATGAGTAAACTCATCAAC
1 AAACTCACAAATGAGTAAACTCATCAAC
48903220 A
1 A
48903221 TCACATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.51, C:0.25, G:0.07, T:0.18
Consensus pattern (28 bp):
AAACTCACAAATGAGTAAACTCATCAAC
Found at i:48910535 original size:141 final size:141
Alignment explanation
Indices: 48910369--48910649 Score: 553
Period size: 141 Copynumber: 2.0 Consensus size: 141
48910359 AGAAAAATCT
*
48910369 TGCTTTTAAAGATGTTCATTTAGTTGGATTTATTGAGAAAATTGAAACCCCGTAAGTTAGGGTAT
1 TGCTTTTAAAGATGTTCATTTAGTTGGATTTATTGAGAAAATTGAAACCCCGTAAGTTAGGGTAC
48910434 GAACTTTTCAAATCAAAATACGAAATTTTACTTATTGGAAATAGAAATTTTTGATATATCGGGTA
66 GAACTTTTCAAATCAAAATACGAAATTTTACTTATTGGAAATAGAAATTTTTGATATATCGGGTA
48910499 AAATGTAACTC
131 AAATGTAACTC
48910510 TGCTTTTAAAGATGTTCATTTAGTTGGATTTATTGAGAAAATTGAAACCCCGTAAGTTAGGGTAC
1 TGCTTTTAAAGATGTTCATTTAGTTGGATTTATTGAGAAAATTGAAACCCCGTAAGTTAGGGTAC
48910575 GAACTTTTCAAATCAAAATACGAAATTTTACTTATTGGAAATAGAAATTTTTGATATATCGGGTA
66 GAACTTTTCAAATCAAAATACGAAATTTTACTTATTGGAAATAGAAATTTTTGATATATCGGGTA
48910640 AAATGTAACT
131 AAATGTAACT
48910650 GATGTTGTAG
Statistics
Matches: 139, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
141 139 1.00
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (141 bp):
TGCTTTTAAAGATGTTCATTTAGTTGGATTTATTGAGAAAATTGAAACCCCGTAAGTTAGGGTAC
GAACTTTTCAAATCAAAATACGAAATTTTACTTATTGGAAATAGAAATTTTTGATATATCGGGTA
AAATGTAACTC
Found at i:48911094 original size:3 final size:3
Alignment explanation
Indices: 48911086--48911119 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
48911076 AAATGAGAAA
* *
48911086 AAT AAT AAT AGT AAT AAT AAT AGT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
48911120 TTAAATTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:48911103 original size:12 final size:12
Alignment explanation
Indices: 48911086--48911119 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
48911076 AAATGAGAAA
48911086 AATAATAATAGT
1 AATAATAATAGT
48911098 AATAATAATAGT
1 AATAATAATAGT
48911110 AATAATAATA
1 AATAATAATA
48911120 TTAAATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (12 bp):
AATAATAATAGT
Found at i:48911964 original size:17 final size:17
Alignment explanation
Indices: 48911931--48911966 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
48911921 ATTATTTTCC
* *
48911931 TTGCGTGTTTCTGTTGT
1 TTGCGTGTTTATCTTGT
48911948 TTGCGTGTTTATCTTGT
1 TTGCGTGTTTATCTTGT
48911965 TT
1 TT
48911967 TGTAGGTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.03, C:0.11, G:0.25, T:0.61
Consensus pattern (17 bp):
TTGCGTGTTTATCTTGT
Found at i:48913282 original size:39 final size:39
Alignment explanation
Indices: 48913241--48913417 Score: 300
Period size: 39 Copynumber: 4.5 Consensus size: 39
48913231 ATTCACTTTT
* *
48913241 AAGCATATATCACATTACTCATATAATCACATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
48913280 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
48913319 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
48913358 AAGCGTATATCACAATACTCATATAAGCACAGAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
48913397 AAGTATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
48913418 AATACAAATT
Statistics
Matches: 131, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 131 1.00
ACGTcount: A:0.45, C:0.22, G:0.05, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:48913370 original size:22 final size:21
Alignment explanation
Indices: 48913266--48913371 Score: 56
Period size: 22 Copynumber: 5.3 Consensus size: 21
48913256 TACTCATATA
*
48913266 ATCACATAACATTTAAGCATAT
1 ATCACATAACATTCAAGC-TAT
48913288 ATCACA-ATAC--TC-A--TAT
1 ATCACATA-ACATTCAAGCTAT
48913304 AATCACATAACATTCAAGCATAT
1 -ATCACATAACATTCAAGC-TAT
48913327 ATCACA-ATAC--TC-A--TAT
1 ATCACATA-ACATTCAAGCTAT
48913343 AATCACATAACATTCAAGCGTAT
1 -ATCACATAACATTCAAGC-TAT
48913366 ATCACA
1 ATCACA
48913372 ATACTCATAT
Statistics
Matches: 65, Mismatches: 1, Indels: 36
0.64 0.01 0.35
Matches are distributed among these distances:
16 6 0.09
17 16 0.25
18 2 0.03
19 6 0.09
20 5 0.08
21 2 0.03
22 22 0.34
23 6 0.09
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.28
Consensus pattern (21 bp):
ATCACATAACATTCAAGCTAT
Found at i:48914193 original size:38 final size:37
Alignment explanation
Indices: 48914133--48914223 Score: 137
Period size: 38 Copynumber: 2.4 Consensus size: 37
48914123 TTGTCACATT
* * *
48914133 GGGCATGTTGAACATGCGAATCGAATAATATCATGTG
1 GGGCATGTTTAACATGCAAATCGAATAATATCATGTA
*
48914170 GGGCATGTTTTAACATGCAAATCGAATAATATCCTGTA
1 GGGCATG-TTTAACATGCAAATCGAATAATATCATGTA
48914208 GGGCATGTTTAACATG
1 GGGCATGTTTAACATG
48914224 TAGTCAAATC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
37 16 0.33
38 33 0.67
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (37 bp):
GGGCATGTTTAACATGCAAATCGAATAATATCATGTA
Found at i:48917508 original size:20 final size:19
Alignment explanation
Indices: 48917485--48917622 Score: 59
Period size: 20 Copynumber: 6.9 Consensus size: 19
48917475 AAGTGCAGCA
48917485 AGGGGTACCGAAGTACAAGT
1 AGGGGTACCGAAGTACAA-T
* *
48917505 AGGGGCA-CGTAAG-AGGAAT
1 AGGGGTACCG-AAGTA-CAAT
* **
48917524 CAAGGGTATTGAAGTACAAAT
1 -AGGGGTACCGAAGTAC-AAT
* * *
48917545 AGGGG-AACGTAAATGCAATT
1 AGGGGTACCG-AAGTACAA-T
48917565 AGGGGTACCGAAGTACAAAT
1 AGGGGTACCGAAGTAC-AAT
* *
48917585 AGGGGCA-TGTAAGTACAAT
1 AGGGGTACCG-AAGTACAAT
*
48917604 CAGGGGTACCGAAGAACAA
1 -AGGGGTACCGAAGTACAA
48917623 ACAGGGGCAC
Statistics
Matches: 86, Mismatches: 19, Indels: 26
0.66 0.15 0.20
Matches are distributed among these distances:
19 12 0.14
20 63 0.73
21 11 0.13
ACGTcount: A:0.39, C:0.13, G:0.32, T:0.16
Consensus pattern (19 bp):
AGGGGTACCGAAGTACAAT
Found at i:48917531 original size:40 final size:40
Alignment explanation
Indices: 48917485--48917645 Score: 182
Period size: 40 Copynumber: 4.0 Consensus size: 40
48917475 AAGTGCAGCA
* *
48917485 AGGGGTACCGAAGTACAAGTAGGGGCACGTAAGAGGAATC
1 AGGGGTACCGAAGTACAAATAGGGGCACGTAAGAGCAATC
* ** * *
48917525 AAGGGTATTGAAGTACAAATAGGGGAACGTAA-ATGCAATT
1 AGGGGTACCGAAGTACAAATAGGGGCACGTAAGA-GCAATC
*
48917565 AGGGGTACCGAAGTACAAATAGGGGCATGTAAGTA-CAATC
1 AGGGGTACCGAAGTACAAATAGGGGCACGTAAG-AGCAATC
* * * *
48917605 AGGGGTACCGAAGAACAAACAGGGGCACATAAGTGCAATC
1 AGGGGTACCGAAGTACAAATAGGGGCACGTAAGAGCAATC
48917645 A
1 A
48917646 TTGAATAATT
Statistics
Matches: 99, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
39 1 0.01
40 97 0.98
42 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.31, T:0.16
Consensus pattern (40 bp):
AGGGGTACCGAAGTACAAATAGGGGCACGTAAGAGCAATC
Found at i:48917623 original size:80 final size:80
Alignment explanation
Indices: 48917485--48917643 Score: 203
Period size: 80 Copynumber: 2.0 Consensus size: 80
48917475 AAGTGCAGCA
* * ** * *
48917485 AGGGGTACCGAAGTACAAGTAGGGGCACGTAAGAGGAATCAAGGGTATTGAAGTACAAATAGGGG
1 AGGGGTACCGAAGTACAAATAGGGGCACGTAAGAGCAATCAAGGGTACCGAAGAACAAACAGGGG
*
48917550 AACGTAAATGCAATT
66 AACATAAATGCAATT
* *
48917565 AGGGGTACCGAAGTACAAATAGGGGCATGTAAGTA-CAATCAGGGGTACCGAAGAACAAACAGGG
1 AGGGGTACCGAAGTACAAATAGGGGCACGTAAG-AGCAATCAAGGGTACCGAAGAACAAACAGGG
* *
48917629 GCACATAAGTGCAAT
65 GAACATAAATGCAAT
48917644 CATTGAATAA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
80 66 0.99
81 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.31, T:0.16
Consensus pattern (80 bp):
AGGGGTACCGAAGTACAAATAGGGGCACGTAAGAGCAATCAAGGGTACCGAAGAACAAACAGGGG
AACATAAATGCAATT
Found at i:48917627 original size:20 final size:20
Alignment explanation
Indices: 48917565--48917629 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
48917555 AAATGCAATT
*
48917565 AGGGGTACCGAAGTACAAAT
1 AGGGGTACCGAAGTACAAAC
* * *
48917585 AGGGGCA-TGTAAGTACAATC
1 AGGGGTACCG-AAGTACAAAC
*
48917605 AGGGGTACCGAAGAACAAAC
1 AGGGGTACCGAAGTACAAAC
48917625 AGGGG
1 AGGGG
48917630 CACATAAGTG
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
19 1 0.03
20 33 0.94
21 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.34, T:0.12
Consensus pattern (20 bp):
AGGGGTACCGAAGTACAAAC
Found at i:48932395 original size:30 final size:31
Alignment explanation
Indices: 48932351--48932442 Score: 132
Period size: 30 Copynumber: 3.0 Consensus size: 31
48932341 AATCTGCCTA
*
48932351 AAAAACAGGAGAAGATAATCTTGGGTTGTTG
1 AAAAACAGAAGAAGATAATCTTGGGTTGTTG
*
48932382 AAAAA-AGAAGAAGATAATCTTGGGTTGTTA
1 AAAAACAGAAGAAGATAATCTTGGGTTGTTG
* * *
48932412 AAAAAGAGAAGAAGATAAGCATGGGTTGTTG
1 AAAAACAGAAGAAGATAATCTTGGGTTGTTG
48932443 GATTTACCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
30 28 0.51
31 27 0.49
ACGTcount: A:0.43, C:0.04, G:0.28, T:0.24
Consensus pattern (31 bp):
AAAAACAGAAGAAGATAATCTTGGGTTGTTG
Found at i:48940839 original size:41 final size:42
Alignment explanation
Indices: 48940756--48940892 Score: 197
Period size: 42 Copynumber: 3.3 Consensus size: 42
48940746 ATAGCCAGCT
* *
48940756 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGAATATCATATCGATGCCAATGTCCCAGAC
48940798 ATGGTCTTACACGAATATCATATC-ATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAATATCATATCGATGCCAATGTCCCAGAC
** * *
48940839 ATTTTCTTACACGAATCA-CATAACGATGCCAATGTCTCAGAC
1 ATGGTCTTACACGAAT-ATCATATCGATGCCAATGTCCCAGAC
48940881 ATGGTCTTACAC
1 ATGGTCTTACAC
48940893 ATAATCACAT
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
41 35 0.41
42 50 0.59
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGAATATCATATCGATGCCAATGTCCCAGAC
Found at i:48943419 original size:43 final size:44
Alignment explanation
Indices: 48943364--48943485 Score: 165
Period size: 43 Copynumber: 2.8 Consensus size: 44
48943354 AAAATCTAGC
*
48943364 TAAAAAGGAGGAGAAGATAATCTTGGGTTGTTGGAAAAAGAATT
1 TAAAAAAGAGGAGAAGATAATCTTGGGTTGTTGGAAAAAGAATT
* * ** *
48943408 T-AGAAAGAGGAGAAGATAATTTTGGGTTGTTCAAAAAATAATT
1 TAAAAAAGAGGAGAAGATAATCTTGGGTTGTTGGAAAAAGAATT
* *
48943451 TAAAAAAGAGGAGAAGATAAACATGGGTTGTTGGA
1 TAAAAAAGAGGAGAAGATAATCTTGGGTTGTTGGA
48943486 TTTACCTTAG
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 37 0.57
44 28 0.43
ACGTcount: A:0.44, C:0.02, G:0.28, T:0.25
Consensus pattern (44 bp):
TAAAAAAGAGGAGAAGATAATCTTGGGTTGTTGGAAAAAGAATT
Found at i:48949651 original size:28 final size:27
Alignment explanation
Indices: 48949588--48949739 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
48949578 ATATTAAGTC
* * * *
48949588 CGCACACTCATTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
48949615 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
48949643 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
48949670 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
48949698 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
48949725 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48949740 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 65 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:48949672 original size:55 final size:55
Alignment explanation
Indices: 48949588--48949739 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
48949578 ATATTAAGTC
* * * *
48949588 CGCACACTCATTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
48949643 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
48949698 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
48949740 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:48952181 original size:27 final size:27
Alignment explanation
Indices: 48952151--48952328 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48952141 ATATTGAGTC
* * * *
48952151 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
48952178 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48952205 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
48952233 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
48952260 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
48952287 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48952314 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48952329 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:48952290 original size:82 final size:81
Alignment explanation
Indices: 48952172--48952327 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48952162 TGCTATATAA
* *
48952172 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
48952237 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
48952254 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
48952318 CACTTAGTGC
65 CACTTAGTGC
48952328 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48953789 original size:178 final size:177
Alignment explanation
Indices: 48953490--48953844 Score: 683
Period size: 178 Copynumber: 2.0 Consensus size: 177
48953480 CAAAGAATAA
48953490 CATTAAACATACCTCAATCTAGTTACATGCATGGCCAAACTTCCTCCTAATCCTCTTCCTTAGGA
1 CATTAAACATACCTCAATCTAGTTACATGCATGGCCAAACTTCCTCCTAATCCTCTTCCTTAGGA
*
48953555 TTTTCGGTCAAAAGAGGTTGAAAAAGGATGAACAAAACCTTTCTTTTCCTTCCTTTAGCTCACGG
66 TTTTCGGTCAAAAGAGGTTGAAAAAGGATGAACAAAACCTTTATTTTCCTTCCTTTAGCTCACGG
48953620 CAATGGGGTGTATGCATGAGACCATTATTATTTTTTTTCTTTTTTTTT
131 CAATGGGGTGTATGCATGAGACCATTATTA-TTTTTTTCTTTTTTTTT
*
48953668 CATTAAACATACCTCAATCTAGTTACATGTATGGCCAAACTTCCTCCTAATCCTCTTCCTTAGGA
1 CATTAAACATACCTCAATCTAGTTACATGCATGGCCAAACTTCCTCCTAATCCTCTTCCTTAGGA
48953733 TTTTCGGTCAAAAGAGGTTGAAAAAGGATGAACAAAACCTTTATTTTCCTTCCTTTAGCTCACGG
66 TTTTCGGTCAAAAGAGGTTGAAAAAGGATGAACAAAACCTTTATTTTCCTTCCTTTAGCTCACGG
48953798 CAATGGGGTGTATGCATGAGACCATTATTATTTTTTTCTTTTTTTTT
131 CAATGGGGTGTATGCATGAGACCATTATTATTTTTTTCTTTTTTTTT
48953845 ATCACCCTTC
Statistics
Matches: 175, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
177 17 0.10
178 158 0.90
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (177 bp):
CATTAAACATACCTCAATCTAGTTACATGCATGGCCAAACTTCCTCCTAATCCTCTTCCTTAGGA
TTTTCGGTCAAAAGAGGTTGAAAAAGGATGAACAAAACCTTTATTTTCCTTCCTTTAGCTCACGG
CAATGGGGTGTATGCATGAGACCATTATTATTTTTTTCTTTTTTTTT
Found at i:48969452 original size:16 final size:16
Alignment explanation
Indices: 48969431--48969462 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
48969421 TGAATATAAA
48969431 GTTAGCCATTAGTATG
1 GTTAGCCATTAGTATG
48969447 GTTAGCCATTAGTATG
1 GTTAGCCATTAGTATG
48969463 ATTAACAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (16 bp):
GTTAGCCATTAGTATG
Found at i:48969516 original size:23 final size:23
Alignment explanation
Indices: 48969490--48969534 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
48969480 TGGGTATGTG
*
48969490 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
48969513 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
48969535 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:48975007 original size:60 final size:59
Alignment explanation
Indices: 48974914--48975032 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 59
48974904 TTTAAAAGGC
*
48974914 AATTAGACCCAAAATTTATTTGGGCTGGACGGAAAGGGCATGAAATCAGCAGGAAAATT
1 AATTAGACCCAAAATTTATTTGGGCTGGACGGAAAAGGCATGAAATCAGCAGGAAAATT
48974973 NAATTAGACCCAAAATTTATTTGGGCTGGACGGAAAAGGCATGAAATCAGCAGGAAAATT
1 -AATTAGACCCAAAATTTATTTGGGCTGGACGGAAAAGGCATGAAATCAGCAGGAAAATT
48975033 GATAAATTAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.22
Consensus pattern (59 bp):
AATTAGACCCAAAATTTATTTGGGCTGGACGGAAAAGGCATGAAATCAGCAGGAAAATT
Found at i:48977370 original size:23 final size:23
Alignment explanation
Indices: 48977344--48977388 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
48977334 TGGGTATGTG
*
48977344 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
48977367 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
48977389 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:48978858 original size:44 final size:44
Alignment explanation
Indices: 48978794--48978956 Score: 152
Period size: 44 Copynumber: 3.6 Consensus size: 44
48978784 CTTCATCGAG
* *
48978794 GCCGATGCCATGTCCTAGACATGGTCTTACACT-TCATATATACGT-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCA-ATATACGTA
* * *
48978839 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTATGCTTA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCAATATACGTA
* * * *
48978883 GCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCTTCATCG-A
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCAAT-AT-A-CGTA
*
48978929 GGCCGATGCATGTCCCAGACATTTCTTA
1 -GCCGATGCATGTCCCAGACATGTCTTA
48978957 TATTGGTGCT
Statistics
Matches: 98, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
43 15 0.15
44 48 0.49
45 8 0.08
46 1 0.01
47 26 0.27
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCAATATACGTA
Found at i:48978946 original size:47 final size:47
Alignment explanation
Indices: 48978753--48979054 Score: 218
Period size: 47 Copynumber: 6.5 Consensus size: 47
48978743 TTGTCAATGC
**
48978753 CATGTCCCATTCATGGTCTTACACTGGCTATCTTCATCGAGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTATCTTCATCGAGGCCGATG
* * * *
48978801 CCATGTCCTAGACATGGTCTTACACT-TC-AT-AT-ATACG-TGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATCTTCAT-CGAGGCCGATG
* *
48978846 CATGTCCCAGACATGTCTTACACTAGC-A-C-T-ATGCTTA-GCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCTTCAT-C-GAGGCCGATG
*
48978890 CATGTCCCAGACACGTCTTACACTGGCTATCTTCATCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCTTCATCGAGGCCGATG
* * * * * * *
48978937 CATGTCCCAGACATTTCTTATATTGG-TGCTCATC-TCTACGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCT-ATCTTCATCGAGGCCGATG
* * * * *
48978983 CCATGTCCCAGACATGATCTTATATTGGCTAT-TATAAT-GTGGCTGATG
1 -CATGTCCCAGACATG-TCTTACACTGGCTATCT-TCATCGAGGCCGATG
*
48979031 CATGTCCTAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
48979055 AGCCCTCGTA
Statistics
Matches: 205, Mismatches: 32, Indels: 35
0.75 0.12 0.13
Matches are distributed among these distances:
43 14 0.07
44 47 0.23
45 10 0.05
46 23 0.11
47 65 0.32
48 22 0.11
49 24 0.12
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCTTCATCGAGGCCGATG
Found at i:48989126 original size:29 final size:29
Alignment explanation
Indices: 48989093--48989166 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
48989083 GTTGTGAGAT
* *
48989093 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
48989122 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
48989151 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
48989167 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:48995876 original size:26 final size:26
Alignment explanation
Indices: 48995847--48995931 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
48995837 GTGAGAACAC
48995847 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* ** **
48995873 ATGTGT-TTAAAATGGTTTTAGG-TCAC-
1 ATGTGTAGTACTAT-G-TGCAGGCT-ACT
*
48995899 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
48995925 ATGTGTA
1 ATGTGTA
48995932 TCAGATTGTT
Statistics
Matches: 42, Mismatches: 11, Indels: 12
0.65 0.17 0.18
Matches are distributed among these distances:
25 10 0.24
26 23 0.55
27 9 0.21
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:48995963 original size:50 final size:50
Alignment explanation
Indices: 48995844--48996137 Score: 313
Period size: 50 Copynumber: 5.8 Consensus size: 50
48995834 GTTGTGAGAA
* ** *
48995844 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG--TACCA-GATTGTTAGGT
*
48995896 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
* * * * * * * **
48995946 CGCATGTGTAGTACTAAGTGTAGGCTCCTATGCGTACCCGATAGCTTCGAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG-TTAGGT
* * * *
48995997 CACGTGTGTAGTACTAAATGCAGGCTACTACGTGTATCC-GATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCAGATTGTTAGGT
* * *
48996047 CACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
** *
48996097 TGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
48996138 GGGCTTCGGT
Statistics
Matches: 204, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
49 5 0.02
50 128 0.63
51 36 0.18
52 35 0.17
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
Found at i:48996084 original size:101 final size:101
Alignment explanation
Indices: 48995900--48996084 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 101
48995890 TTAGGTCACA
* * * *
48995900 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATTGTTAGGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAATGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGT
** * *
48995965 GTAGGCTCCTATGCGTACCCGATAGCTTCGACCACG
66 ACAGGCTACTACGCGTACCCGATAGCTTCGACCACG
* *
48996001 TGTGTAGTACTAAATGCAGGCTACTACGTGTATCCGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAATGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGT
*
48996066 ACAGGCTACTACGTGTACC
66 ACAGGCTACTACGCGTACC
48996085 AGATTGTTAG
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 73 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (101 bp):
TGTGTAGTACTAAATGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGT
ACAGGCTACTACGCGTACCCGATAGCTTCGACCACG
Found at i:48996128 original size:151 final size:152
Alignment explanation
Indices: 48995848--48996134 Score: 432
Period size: 151 Copynumber: 1.9 Consensus size: 152
48995838 TGAGAACACA
** * *
48995848 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGTCACATGTGTAGTACTAA
1 TGTGTAGTACTAAATGCAGGCTACTACGTGTATAAAATGG-TTTAGGTCACATGTGTAGTACTAA
* * * * *
48995913 GTGCAGGCTACTATGTGTATCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGTAGGCTCCTATG
65 GTACAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
48995978 CGTACCCGATAGCTTCGACCACG
130 CGTACCCGATAGCTTCGACCACG
*** *
48996001 TGTGTAGTACTAAATGCAGGCTACTACGTGTATCCGATGG-TTAGGTCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAATGCAGGCTACTACGTGTATAAAATGGTTTAGGTCACATGTGTAGTACTAAG
*
48996065 TACAGGCTACTACGTGTACCAGATTGTTAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGC
66 TACAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
48996130 GTACC
131 GTACC
48996135 AGAGGGCTTC
Statistics
Matches: 120, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
151 87 0.73
153 33 0.28
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (152 bp):
TGTGTAGTACTAAATGCAGGCTACTACGTGTATAAAATGGTTTAGGTCACATGTGTAGTACTAAG
TACAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
GTACCCGATAGCTTCGACCACG
Found at i:48996172 original size:151 final size:151
Alignment explanation
Indices: 48995890--48996172 Score: 377
Period size: 151 Copynumber: 1.9 Consensus size: 151
48995880 TAAAATGGTT
* * *
48995890 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATTGTTAGGTCGCATGTGT
1 TTAGGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGT
* * * * ** * * *
48995955 AGTACTAAGTGTAGGCTCCTATGCGTACCCGATAGCTTCGACCACGTGTGTAGTACTAAATGCAG
66 AGTACTAAGTGCAGGCTACTATGCGTACCAGAGAGCTTCGACCACAAGGGTAGTAATAAATACAG
48996020 GCTACTACGTGTATCCGATGG
131 GCTACTACGTGTATCCGATGG
* *
48996041 TTAGGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGTTAGGTTGCATGTGT
1 TTAGGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGT
* *** * **
48996106 AGTACTAAGTGCAGGCTACTATGCGTACCAGAGGGCTTCGGTTACAAGGGTGGTAATATGTACAG
66 AGTACTAAGTGCAGGCTACTATGCGTACCAGAGAGCTTCGACCACAAGGGTAGTAATAAATACAG
48996171 GC
131 GC
48996173 CACCGGGTAT
Statistics
Matches: 111, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
151 111 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (151 bp):
TTAGGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGT
AGTACTAAGTGCAGGCTACTATGCGTACCAGAGAGCTTCGACCACAAGGGTAGTAATAAATACAG
GCTACTACGTGTATCCGATGG
Found at i:48997895 original size:16 final size:17
Alignment explanation
Indices: 48997862--48997896 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
48997852 GTGTCCCAAG
48997862 CCACATGGGCGTGTGTGA
1 CCACATGGGCG-GTGTGA
48997880 CCACATGGGC-GTGTGA
1 CCACATGGGCGGTGTGA
48997896 C
1 C
48997897 TCTCCAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
18 10 0.59
ACGTcount: A:0.17, C:0.26, G:0.37, T:0.20
Consensus pattern (17 bp):
CCACATGGGCGGTGTGA
Found at i:48999260 original size:99 final size:95
Alignment explanation
Indices: 48999026--48999251 Score: 243
Period size: 95 Copynumber: 2.4 Consensus size: 95
48999016 AGGGTATAAT
* * * **
48999026 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATC-C--AT-CAAGTCGTGCCATGTCC
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATATCCGTGTCGTGCCATGTCC
*
48999087 CAGACATGGTATTACACTGACTATCGAAATCGAG
65 CAGACATGGTATTACACTAACTATC---ATCGAG
*
48999121 GCCGACGCCATGTCCCAGACATGGTCTTACCCTAGCTCTCACATATCCGTGTCGATGCCATGTCC
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGTCG-TGCCATGTCC
*
48999186 CAGACATGGTCTTACACTAACATATC-TCGTA-
65 CAGACATGGTATTACACTAAC-TATCATCG-AG
* *
48999217 GCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCT
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCT
48999252 TTCATCTCAA
Statistics
Matches: 113, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
94 15 0.13
95 49 0.43
96 8 0.07
97 3 0.03
98 5 0.04
99 29 0.26
100 4 0.04
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (95 bp):
GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGTCGTGCCATGTCCC
AGACATGGTATTACACTAACTATCATCGAG
Found at i:49002084 original size:48 final size:48
Alignment explanation
Indices: 49002032--49002263 Score: 254
Period size: 48 Copynumber: 4.8 Consensus size: 48
49002022 ACGAAGTCTT
* * * *
49002032 ATATCGATGTTGATGCCATGTCCTAGACATGGTCTTACACTAGCACAC
1 ATATCAATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACAC
* ** *
49002080 ATATC-ATCGCTAATGCCATGTCCCAGACATCATCTTATACTGGCACAC
1 ATATCAAT-GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACAC
*
49002128 ATATCAA--CATCGATGCCATGTCCTAGACATGGTCTTACACTGGCACAC
1 ATATCAATGC-T-GATGCCATGTCCCAGACATGGTCTTACACTGGCACAC
* * * *
49002176 ATATCAACGCTGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTC
1 ATATCAATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACAC
* * * *
49002224 ATCTCGGATGCCGATGCCATGTCGCAGACATGGTCTTACA
1 ATATC-AATGCTGATGCCATGTCCCAGACATGGTCTTACA
49002264 TGGGATCTCA
Statistics
Matches: 155, Mismatches: 22, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
46 1 0.01
47 3 0.02
48 119 0.77
49 31 0.20
50 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
ATATCAATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACAC
Found at i:49002143 original size:96 final size:96
Alignment explanation
Indices: 49002043--49002263 Score: 304
Period size: 96 Copynumber: 2.3 Consensus size: 96
49002033 TATCGATGTT
*
49002043 GATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCATCGCTAATGCCATGTCCCAGAC
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAACGCTAATGCCATGTCCCAGAC
*
49002108 ATCA-TCTTATACTGGCACACATATCAACAT-C
66 AT-AGTCTTACACTGGCACACATATC-ACATCC
* *
49002139 GATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCAACGCTGATGCCATGTCCCAGAC
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAACGCTAATGCCATGTCCCAGAC
* * * **
49002204 ATAGTCTTACACTGGCTCTCATCTCGGATGCC
66 ATAGTCTTACACTGGCACACATATCACAT-CC
49002236 GATGCCATGTCGC-AGACATGGTCTTACA
1 GATGCCATGTC-CTAGACATGGTCTTACA
49002264 TGGGATCTCA
Statistics
Matches: 112, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
95 3 0.03
96 81 0.72
97 27 0.24
98 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (96 bp):
GATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAACGCTAATGCCATGTCCCAGAC
ATAGTCTTACACTGGCACACATATCACATCC
Found at i:49008789 original size:72 final size:72
Alignment explanation
Indices: 49008672--49008808 Score: 265
Period size: 72 Copynumber: 1.9 Consensus size: 72
49008662 TCGTTACTTT
*
49008672 CATATGAAAGTAGATTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCACTCCTAC
1 CATATGAAAGTAGATTCATCAAGGTTCGATTACAGAATTTATTCACTATTTAATTCCACTCCTAC
49008737 TTTCTTC
66 TTTCTTC
49008744 CATATGAAAGTAGATTCATCAAGGTTCGATTACAGAATTTATTCACTATTTAATTCCACTCCTAC
1 CATATGAAAGTAGATTCATCAAGGTTCGATTACAGAATTTATTCACTATTTAATTCCACTCCTAC
49008809 GAATTCTTGT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.38
Consensus pattern (72 bp):
CATATGAAAGTAGATTCATCAAGGTTCGATTACAGAATTTATTCACTATTTAATTCCACTCCTAC
TTTCTTC
Found at i:49009361 original size:60 final size:60
Alignment explanation
Indices: 49009288--49009407 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
49009278 AGTAAGTTTT
49009288 GAGCAAGGAATTCCAGCATAAACAAAGAATAACACACATTTAGCTAAACGGAATATTTCA
1 GAGCAAGGAATTCCAGCATAAACAAAGAATAACACACATTTAGCTAAACGGAATATTTCA
** * *
49009348 GAGCAAGGAATTCCAGCATGCACAAATAATAGCACACATTTAGCTAAACGGAATATTTCA
1 GAGCAAGGAATTCCAGCATAAACAAAGAATAACACACATTTAGCTAAACGGAATATTTCA
49009408 TAATACGCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (60 bp):
GAGCAAGGAATTCCAGCATAAACAAAGAATAACACACATTTAGCTAAACGGAATATTTCA
Found at i:49009718 original size:39 final size:40
Alignment explanation
Indices: 49009673--49009857 Score: 187
Period size: 40 Copynumber: 4.7 Consensus size: 40
49009663 GCTCCTCGTT
* * *
49009673 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
49009713 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
49009752 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * *
49009792 CAAAGGCCTTC-GGATCATAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
49009833 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
49009858 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 37 0.31
40 72 0.60
41 11 0.09
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:49009913 original size:25 final size:25
Alignment explanation
Indices: 49009885--49009934 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
49009875 TGCACATCTA
*
49009885 ACAATAATTCATAGCCCATTCATAT
1 ACAATAATTCATAGCACATTCATAT
*
49009910 ACAATAATTCATGGCACATTCATAT
1 ACAATAATTCATAGCACATTCATAT
49009935 TTCATTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (25 bp):
ACAATAATTCATAGCACATTCATAT
Found at i:49012491 original size:56 final size:53
Alignment explanation
Indices: 49012407--49012512 Score: 167
Period size: 56 Copynumber: 1.9 Consensus size: 53
49012397 CACTTTTAAA
*
49012407 GTAAACAACACTGATTAAAACCTTATTTTGATGAGATTGATAGCAGGAANTAAG
1 GTAAACAACACTGATTAAAACCCTATTTTGATGAGATTGATAGCAGGAA-TAAG
*
49012461 GTAAATAACACCTGATTAAAAACCCTATTTTGATGAGATTGATAGCAGGAAT
1 GTAAACAACA-CTGATT-AAAACCCTATTTTGATGAGATTGATAGCAGGAAT
49012513 GAGAAGTATG
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
54 9 0.19
55 7 0.15
56 32 0.67
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.28
Consensus pattern (53 bp):
GTAAACAACACTGATTAAAACCCTATTTTGATGAGATTGATAGCAGGAATAAG
Found at i:49025627 original size:13 final size:13
Alignment explanation
Indices: 49025606--49025641 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
49025596 CCGTGTCCTT
*
49025606 CACATGGCTAAGA
1 CACACGGCTAAGA
49025619 CACACGGCTAAGA
1 CACACGGCTAAGA
49025632 CACACGGCTA
1 CACACGGCTA
49025642 CGTCTCTGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.31, G:0.22, T:0.11
Consensus pattern (13 bp):
CACACGGCTAAGA
Found at i:49027745 original size:21 final size:20
Alignment explanation
Indices: 49027721--49027759 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
49027711 TTATAATGAG
49027721 CACAAGAGCGTGTTGCCCTTT
1 CACAAGAGCGTG-TGCCCTTT
* *
49027742 CACATGGGCGTGTGCCCT
1 CACAAGAGCGTGTGCCCT
49027760 GTTTTAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.15, C:0.31, G:0.28, T:0.26
Consensus pattern (20 bp):
CACAAGAGCGTGTGCCCTTT
Found at i:49033635 original size:31 final size:31
Alignment explanation
Indices: 49033600--49033660 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
49033590 GATTTTAGTA
* *
49033600 CGTGATTGATCTGAGCAAGTTATAGGTAATG
1 CGTGATTGATCTAAGCAAGTGATAGGTAATG
49033631 CGTGATTGATCTAAGCAAGTGATAGGTAAT
1 CGTGATTGATCTAAGCAAGTGATAGGTAAT
49033661 CTCATGAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (31 bp):
CGTGATTGATCTAAGCAAGTGATAGGTAATG
Found at i:49034577 original size:34 final size:34
Alignment explanation
Indices: 49034529--49034593 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
49034519 GCATATCTGT
*
49034529 ATTGTTACTATTACTGAAATGGGCTAAGGCCTAC
1 ATTGATACTATTACTGAAATGGGCTAAGGCCTAC
* * *
49034563 ATTGATACTATTACTGTATTGGGCTGAGGCC
1 ATTGATACTATTACTGAAATGGGCTAAGGCC
49034594 CTAACTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (34 bp):
ATTGATACTATTACTGAAATGGGCTAAGGCCTAC
Found at i:49036875 original size:46 final size:44
Alignment explanation
Indices: 49036779--49037359 Score: 467
Period size: 46 Copynumber: 12.6 Consensus size: 44
49036769 GGATGCAGGT
* *
49036779 GCCGATGCCATGTCCTAGACATGGTCTTACACTGAC-ACATGTCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTACATCTCG-A
*
49036825 GCCGATGCATGTCCCAGACATGTCTTACACTGACTGGCATCTCGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACT-ACATCTCGA
** * **
49036870 GGCCGAAACATGTCCCAGATATGTCTTACACTAGCACT-CATCTTAA
1 -GCCGATGCATGTCCCAGACATGTCTTACACT-G-ACTACATCTCGA
* * *
49036916 TGCCAATGCCATGTCCTAGACATGGTCTTACACTGAC-ACATGTCGTA
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTACATCTCG-A
*
49036963 GCCGATGCATGTCCCAGACATGTCTTACACTGACTGGCATCTCGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACT-ACATCTCGA
** * **
49037008 GGCCGAAACATGTCCCAGATATGTCTTACACTAGCACT-CATCTTAA
1 -GCCGATGCATGTCCCAGACATGTCTTACACT-G-ACTACATCTCGA
* * *
49037054 TGCCAATGCCATGTCCTAGACATGGTCTTACACTGAC-ACATGTCGTA
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTACATCTCG-A
*
49037101 GCCGATGCATGTCCCAGACATGTCTTACACTGACTGGCATCTCGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACT-ACATCTCGA
** * **
49037146 GGCCGAAACATGTCCCAGATATGTCTTACACTAGCACT-CATCTTAA
1 -GCCGATGCATGTCCCAGACATGTCTTACACT-G-ACTACATCTCGA
* * *
49037192 TGCCAATGCCATGTCCTAGACATGGTCTTACACTGAC-ACATGTCGTA
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTACATCTCG-A
*
49037239 GCCGATGCATGTCCCAGACATGTCTTACACTGACTGGCATCTCGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACT-ACATCTCGA
** * **
49037284 GGCCGAAACATGTCCCAGATATGTCTTACACTAGCACT-CATCTTAA
1 -GCCGATGCATGTCCCAGACATGTCTTACACT-G-ACTACATCTCGA
* *
49037330 TGCCAATGCCATGTCCTAGACATGGTCTTA
1 -GCCGATG-CATGTCCCAGACAT-GTCTTA
49037360 TTCTGGCTCT
Statistics
Matches: 433, Mismatches: 68, Indels: 66
0.76 0.12 0.12
Matches are distributed among these distances:
44 52 0.12
45 56 0.13
46 219 0.51
47 58 0.13
48 48 0.11
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTACATCTCGA
Found at i:49037031 original size:138 final size:138
Alignment explanation
Indices: 49036778--49037359 Score: 1155
Period size: 138 Copynumber: 4.2 Consensus size: 138
49036768 TGGATGCAGG
*
49036778 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGACACATGTCGTAGCCGATGCATGTCCCAGA
1 TGCCAATGCCATGTCCTAGACATGGTCTTACACTGACACATGTCGTAGCCGATGCATGTCCCAGA
49036843 CATGTCTTACACTGACTGGCATCTCGAGGCCGAAACATGTCCCAGATATGTCTTACACTAGCACT
66 CATGTCTTACACTGACTGGCATCTCGAGGCCGAAACATGTCCCAGATATGTCTTACACTAGCACT
49036908 CATCTTAA
131 CATCTTAA
49036916 TGCCAATGCCATGTCCTAGACATGGTCTTACACTGACACATGTCGTAGCCGATGCATGTCCCAGA
1 TGCCAATGCCATGTCCTAGACATGGTCTTACACTGACACATGTCGTAGCCGATGCATGTCCCAGA
49036981 CATGTCTTACACTGACTGGCATCTCGAGGCCGAAACATGTCCCAGATATGTCTTACACTAGCACT
66 CATGTCTTACACTGACTGGCATCTCGAGGCCGAAACATGTCCCAGATATGTCTTACACTAGCACT
49037046 CATCTTAA
131 CATCTTAA
49037054 TGCCAATGCCATGTCCTAGACATGGTCTTACACTGACACATGTCGTAGCCGATGCATGTCCCAGA
1 TGCCAATGCCATGTCCTAGACATGGTCTTACACTGACACATGTCGTAGCCGATGCATGTCCCAGA
49037119 CATGTCTTACACTGACTGGCATCTCGAGGCCGAAACATGTCCCAGATATGTCTTACACTAGCACT
66 CATGTCTTACACTGACTGGCATCTCGAGGCCGAAACATGTCCCAGATATGTCTTACACTAGCACT
49037184 CATCTTAA
131 CATCTTAA
49037192 TGCCAATGCCATGTCCTAGACATGGTCTTACACTGACACATGTCGTAGCCGATGCATGTCCCAGA
1 TGCCAATGCCATGTCCTAGACATGGTCTTACACTGACACATGTCGTAGCCGATGCATGTCCCAGA
49037257 CATGTCTTACACTGACTGGCATCTCGAGGCCGAAACATGTCCCAGATATGTCTTACACTAGCACT
66 CATGTCTTACACTGACTGGCATCTCGAGGCCGAAACATGTCCCAGATATGTCTTACACTAGCACT
49037322 CATCTTAA
131 CATCTTAA
49037330 TGCCAATGCCATGTCCTAGACATGGTCTTA
1 TGCCAATGCCATGTCCTAGACATGGTCTTA
49037360 TTCTGGCTCT
Statistics
Matches: 443, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 443 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (138 bp):
TGCCAATGCCATGTCCTAGACATGGTCTTACACTGACACATGTCGTAGCCGATGCATGTCCCAGA
CATGTCTTACACTGACTGGCATCTCGAGGCCGAAACATGTCCCAGATATGTCTTACACTAGCACT
CATCTTAA
Found at i:49038816 original size:27 final size:28
Alignment explanation
Indices: 49038776--49038829 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
49038766 ACAATTTCAC
*
49038776 TTGGGTCTCAGCCC-TCATCAAAATCAAT
1 TTGGGCCTCAGCCCATC-TCAAAATCAAT
49038804 TTGGGCCT-AGCCCATTCTCAAAATCA
1 TTGGGCCTCAGCCCA-TCTCAAAATCA
49038830 GTAATAGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 5 0.22
28 16 0.70
29 2 0.09
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (28 bp):
TTGGGCCTCAGCCCATCTCAAAATCAAT
Found at i:49039294 original size:26 final size:26
Alignment explanation
Indices: 49039258--49039344 Score: 77
Period size: 26 Copynumber: 3.3 Consensus size: 26
49039248 GGGCATAATC
49039258 GTCATTCTACCATACAGGGGTATTATG
1 GTCATT-TACCATACAGGGGTATTATG
* * * *
49039285 GTCATTTACCCTACTGGGGCATTACG
1 GTCATTTACCATACAGGGGTATTATG
* *
49039311 GTCATTTTA-CACTACAAGGGTATTTTG
1 GTCA-TTTACCA-TACAGGGGTATTATG
*
49039338 GTAATTT
1 GTCATTT
49039345 TGCCAATATT
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
26 24 0.51
27 23 0.49
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (26 bp):
GTCATTTACCATACAGGGGTATTATG
Found at i:49054064 original size:30 final size:30
Alignment explanation
Indices: 49054030--49054090 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
49054020 TCCTTAACTC
49054030 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
49054060 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
49054090 A
1 A
49054091 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:49055271 original size:24 final size:24
Alignment explanation
Indices: 49055239--49055355 Score: 135
Period size: 24 Copynumber: 4.9 Consensus size: 24
49055229 TCGGTCAAGG
*
49055239 AAATTCGCACACATAGTGCCATGC
1 AAATCCGCACACATAGTGCCATGC
* * *
49055263 TAACCCGCACACATAGTGCCTTGC
1 AAATCCGCACACATAGTGCCATGC
* * * *
49055287 TAATCCACACACGTAGTGCCATTC
1 AAATCCGCACACATAGTGCCATGC
* * *
49055311 AAATACACACACATAGTGCCATTC
1 AAATCCGCACACATAGTGCCATGC
49055335 AAATCCGCACACATAGTGCCA
1 AAATCCGCACACATAGTGCCA
49055356 ATGTCATTTC
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 79 1.00
ACGTcount: A:0.33, C:0.32, G:0.14, T:0.21
Consensus pattern (24 bp):
AAATCCGCACACATAGTGCCATGC
Found at i:49056695 original size:17 final size:17
Alignment explanation
Indices: 49056673--49056706 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
49056663 CCCAACTTAA
*
49056673 TATATTATAACTTATTT
1 TATATTATAACATATTT
49056690 TATATTATAACATATTT
1 TATATTATAACATATTT
49056707 CAAATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:49057401 original size:29 final size:28
Alignment explanation
Indices: 49057336--49057432 Score: 144
Period size: 28 Copynumber: 3.4 Consensus size: 28
49057326 ACATACATGC
49057336 ATATGGCCCA-CTAGGCCCAATCTCATTT
1 ATATGGCCCATC-AGGCCCAATCTCATTT
*
49057364 ATATGGCCCATCCGGCCCAAT-TCACTTT
1 ATATGGCCCATCAGGCCCAATCTCA-TTT
49057392 CATATGGCCCATCAGGCCCAATCTCATTT
1 -ATATGGCCCATCAGGCCCAATCTCATTT
49057421 ATATGGCCCATC
1 ATATGGCCCATC
49057433 CGACCCAAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
27 3 0.05
28 33 0.52
29 24 0.38
30 3 0.05
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.28
Consensus pattern (28 bp):
ATATGGCCCATCAGGCCCAATCTCATTT
Found at i:49057409 original size:57 final size:57
Alignment explanation
Indices: 49057335--49057445 Score: 188
Period size: 57 Copynumber: 1.9 Consensus size: 57
49057325 TACATACATG
* *
49057335 CATATGGCCCACTAGGCCCAATCTCATTTATATGGCCCATCCGGCCCAATTCACTTT
1 CATATGGCCCACTAGGCCCAATCTCATTTATATGGCCCATCCGACCCAAATCACTTT
49057392 CATATGGCCCA-TCAGGCCCAATCTCATTTATATGGCCCATCCGACCCAAATCAC
1 CATATGGCCCACT-AGGCCCAATCTCATTTATATGGCCCATCCGACCCAAATCAC
49057446 ATTATATTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
56 1 0.02
57 50 0.98
ACGTcount: A:0.25, C:0.36, G:0.14, T:0.25
Consensus pattern (57 bp):
CATATGGCCCACTAGGCCCAATCTCATTTATATGGCCCATCCGACCCAAATCACTTT
Found at i:49057450 original size:28 final size:28
Alignment explanation
Indices: 49057336--49057452 Score: 114
Period size: 28 Copynumber: 4.1 Consensus size: 28
49057326 ACATACATGC
* *
49057336 ATATGGCCCA-CTAGGCCC-AATCTCATTT
1 ATATGGCCCATC-CGGCCCAAATCACA-TT
* *
49057364 ATATGGCCCATCCGGCCCAATTCACTTT
1 ATATGGCCCATCCGGCCCAAATCACATT
* *
49057392 CATATGGCCCATCAGGCCC-AATCTCATTT
1 -ATATGGCCCATCCGGCCCAAATCACA-TT
*
49057421 ATATGGCCCATCCGACCCAAATCACATT
1 ATATGGCCCATCCGGCCCAAATCACATT
49057449 ATAT
1 ATAT
49057453 TCATGCTCAC
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
28 43 0.59
29 30 0.41
ACGTcount: A:0.26, C:0.33, G:0.13, T:0.27
Consensus pattern (28 bp):
ATATGGCCCATCCGGCCCAAATCACATT
Found at i:49060033 original size:49 final size:50
Alignment explanation
Indices: 49059972--49060209 Score: 221
Period size: 49 Copynumber: 4.8 Consensus size: 50
49059962 TGAGGTCACG
* * *
49059972 TGTGTAGTACTAAGAGCAGGCTACTACGTGTACCGGATTATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
* ** * * * *
49060021 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATC-AA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGGTCGCA
* * * ** * *
49060071 GTGTGTAGTACTAGGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACG
1 -TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
** *
49060122 TGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGATAATT-CGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
* * * *
49060171 TGAGTAGTACTAAGTGCAGGCTCCTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
49060210 GCTTTGCCTA
Statistics
Matches: 150, Mismatches: 35, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
49 73 0.49
50 43 0.29
51 34 0.23
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
Found at i:49060161 original size:101 final size:99
Alignment explanation
Indices: 49059971--49060208 Score: 255
Period size: 100 Copynumber: 2.4 Consensus size: 99
49059961 GTGAGGTCAC
* * * *
49059971 GTGTGTAGTACTAAGAGCAGGCTACTACGTGTACCGGATTATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGAGCAAGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACTAAGT
* *
49060036 GCAGGCTACTATGCATACCCGATAACTTCGATCAA
66 GCAGGCTACTATACATACCAGATAA-TTCGATCAA
* * * * *
49060071 GTGTGTAGTACTAGGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAG
1 GTGTGTAGTACTAAGAGCAAGCTACTACGTGTACCAGATGATT-GGTCACATGTGTAGTACTAAG
** *
49060136 TGCAGGCTACTATATGTACCAGATAATTCG-TCGCA
65 TGCAGGCTACTATACATACCAGATAATTCGATC-AA
* * * * * *
49060171 -TGAGTAGTACTAAGTGCAGGCTCCTATGCGTACCAGAT
1 GTGTGTAGTACTAAGAGCAAGCTACTACGTGTACCAGAT
49060209 AGCTTTGCCT
Statistics
Matches: 115, Mismatches: 21, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
99 33 0.29
100 41 0.36
101 41 0.36
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (99 bp):
GTGTGTAGTACTAAGAGCAAGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACTAAGT
GCAGGCTACTATACATACCAGATAATTCGATCAA
Found at i:49064728 original size:46 final size:46
Alignment explanation
Indices: 49064670--49064790 Score: 188
Period size: 46 Copynumber: 2.6 Consensus size: 46
49064660 TCCCAAGGCT
* *
49064670 GATGAATGTCCCAAACATGTCTTACACTGGGACTCATGTTGTGGCC
1 GATGCATGTCCCAAACATGTCTTACACTGGCACTCATGTTGTGGCC
* * *
49064716 GATGCATGTCCCAGACATGTCTTACACTGGCACTTATGTTGTGGTC
1 GATGCATGTCCCAAACATGTCTTACACTGGCACTCATGTTGTGGCC
*
49064762 GATGCATGTCTCAAACATGTCTTACACTG
1 GATGCATGTCCCAAACATGTCTTACACTG
49064791 TCTCACATAC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (46 bp):
GATGCATGTCCCAAACATGTCTTACACTGGCACTCATGTTGTGGCC
Found at i:49071604 original size:28 final size:29
Alignment explanation
Indices: 49071551--49071611 Score: 106
Period size: 28 Copynumber: 2.1 Consensus size: 29
49071541 TGAGCATGAC
49071551 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGATTTGGGCCTAATGGGCCA
*
49071580 TATAAATGTGA-TTGGGCCTAGTGGGCCA
1 TATAAATGTGATTTGGGCCTAATGGGCCA
49071608 TATA
1 TATA
49071612 TAGGTATGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 20 0.65
29 11 0.35
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (29 bp):
TATAAATGTGATTTGGGCCTAATGGGCCA
Found at i:49075513 original size:39 final size:39
Alignment explanation
Indices: 49075467--49075564 Score: 160
Period size: 39 Copynumber: 2.5 Consensus size: 39
49075457 GCTTAAAGAC
* *
49075467 CCGCAGGCTATATGCTGGAATTATACCCGGACTTAAGCT
1 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGCT
*
49075506 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
1 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGCT
*
49075545 CCGCAGGCTACGTGCTGGAA
1 CCGCAGGCTATGTGCTGGAA
49075565 ATATGTCCGG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGCT
Found at i:49076301 original size:33 final size:33
Alignment explanation
Indices: 49076264--49076329 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
49076254 TTACTTCGTT
* *
49076264 TGTTACGTTCTCTGCTTTATAGATTGTTGATTC
1 TGTTACGTTCTCTACTTTATAGATTATTGATTC
49076297 TGTTACGTTCTCTACTTTATAGATTATTGATTC
1 TGTTACGTTCTCTACTTTATAGATTATTGATTC
49076330 CAGTTACTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.52
Consensus pattern (33 bp):
TGTTACGTTCTCTACTTTATAGATTATTGATTC
Found at i:49083457 original size:39 final size:39
Alignment explanation
Indices: 49083400--49083485 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
49083390 GCAGGTTATA
* * *
49083400 TGCTGGAATTATACCCGGACTTAAGGTCCGTAGGCTATG
1 TGCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACG
*
49083439 TGCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTGCG
1 TGCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACG
49083478 TGCTGGAA
1 TGCTGGAA
49083486 ATATGTCCGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (39 bp):
TGCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACG
Found at i:49083827 original size:23 final size:23
Alignment explanation
Indices: 49083757--49083828 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
49083747 TACACATTTA
49083757 TATATATAAGTGTAATTGATGGT
1 TATATATAAGTGTAATTGATGGT
* * * *
49083780 TATAT-T-TGCGATACATTTAT--A
1 TATATATAAGTG-TA-ATTGATGGT
49083801 TATATATAAGTGTAATTGATGGT
1 TATATATAAGTGTAATTGATGGT
49083824 TATAT
1 TATAT
49083829 TTGCGAATAT
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
21 12 0.34
22 6 0.17
23 17 0.49
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.46
Consensus pattern (23 bp):
TATATATAAGTGTAATTGATGGT
Found at i:49085766 original size:47 final size:47
Alignment explanation
Indices: 49085712--49085807 Score: 167
Period size: 47 Copynumber: 2.0 Consensus size: 47
49085702 GTTGAATTTA
49085712 AAGCTTGTTAAATTTG-CTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCT-TTAATATTTCCGGATAAGTTACTTAGTT
*
49085759 AAGCTTGTTAAATTTTCCTTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCTTTAATATTTCCGGATAAGTTACTTAGTT
49085806 AA
1 AA
49085808 AGAAAATTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 45 0.96
48 2 0.04
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCCTTTAATATTTCCGGATAAGTTACTTAGTT
Found at i:49087105 original size:31 final size:31
Alignment explanation
Indices: 49087062--49087125 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
49087052 CCTTTTCATA
49087062 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
49087093 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
49087124 TT
1 TT
49087126 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:49087359 original size:24 final size:24
Alignment explanation
Indices: 49087332--49087485 Score: 240
Period size: 24 Copynumber: 6.4 Consensus size: 24
49087322 TTGGAGGCCT
49087332 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
*
49087356 AGCCTTTTTTTAATAACTGGGGCATA
1 AGCC--CTTTTAATAACTGGGGCATA
49087382 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
49087405 AGCCCTTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
49087429 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
49087453 AGCCCTTTTAATAATTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
49087477 AGCCCTTTT
1 AGCCCTTTT
49087486 GCACTTCCTC
Statistics
Matches: 122, Mismatches: 5, Indels: 6
0.92 0.04 0.05
Matches are distributed among these distances:
23 23 0.19
24 76 0.62
25 18 0.15
26 5 0.04
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:49087556 original size:9 final size:9
Alignment explanation
Indices: 49087542--49087618 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
49087532 ATCTCGTGTG
49087542 CATATCATA
1 CATATCATA
*
49087551 CATATCATGTG
1 CATATCA--TA
49087562 CATATCATA
1 CATATCATA
* *
49087571 CATGTCATCTG
1 CATATCA--TA
49087582 CATATCATA
1 CATATCATA
*
49087591 CATATCATGTG
1 CATATCA--TA
49087602 CATATCATA
1 CATATCATA
49087611 CATATCAT
1 CATATCAT
49087619 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:49087561 original size:20 final size:20
Alignment explanation
Indices: 49087538--49087620 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
49087528 GAACATCTCG
49087538 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
49087558 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
*
49087578 TCTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
49087598 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
49087618 TGT
1 TGT
49087621 TTATCAAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:49089750 original size:45 final size:45
Alignment explanation
Indices: 49089682--49089943 Score: 350
Period size: 45 Copynumber: 5.9 Consensus size: 45
49089672 CGTACAATAT
49089682 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* * *
49089727 TATTCAGGCCTTTGAGCCAAGCAGGCTATAATGCCAGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
*
49089772 TATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* * **
49089817 TATTTGGGCCTTTGAGCCTAGCAAGCTATAATGCCGGCAAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* * ** * **
49089862 TATTCTGGCATTTGAGCCTAGCAGGCTATAATGCTAGTGAAATGG
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* *
49089907 TA-TCGGG-CTTCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
49089944 ATGAATTTAG
Statistics
Matches: 188, Mismatches: 29, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
42 9 0.05
43 16 0.09
44 4 0.02
45 159 0.85
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:49096467 original size:47 final size:47
Alignment explanation
Indices: 49096413--49096508 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 47
49096403 GTTGAATTTA
* * *
49096413 AAGCTTGTTAAATTTGCTCTTAATATTTCTAGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAATT
* *
49096460 AAGCTTGTTAAATTTTCCCTTAATATTTCCGGATAAGTTACTTAATT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAATT
49096507 AA
1 AA
49096509 AGAAAATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.45
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAATT
Found at i:49097382 original size:45 final size:45
Alignment explanation
Indices: 49097318--49097536 Score: 332
Period size: 45 Copynumber: 4.9 Consensus size: 45
49097308 CACACGGTAT
*
49097318 TATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* *
49097363 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGATGAGAT-C
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* *
49097407 TATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCAGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* * *
49097452 TATTTGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTAAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* * *
49097497 TATTCGGGCATTCGAGCCTAGCAGGCTATAATGCCAGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
49097537 ATGAATTCAG
Statistics
Matches: 157, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
44 40 0.25
45 117 0.75
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:49097469 original size:89 final size:90
Alignment explanation
Indices: 49097318--49097536 Score: 350
Period size: 89 Copynumber: 2.4 Consensus size: 90
49097308 CACACGGTAT
* *
49097318 TATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGATACTATTCGGGCCTTTGAGCCTA
1 TATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCAGTGAGATACTATTCGGGCCTTCGAGCCTA
* *
49097383 GCAGGCTATAATGCTGATGAGAT-C
66 GCAGGCTATAATGCCGATAAGATAC
*
49097407 TATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCAGTGAGATACTATTTGGGCCTTCGAGCCTA
1 TATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCAGTGAGATACTATTCGGGCCTTCGAGCCTA
*
49097472 GCAGGCTATAATGCCGGTAAGATAC
66 GCAGGCTATAATGCCGATAAGATAC
* * *
49097497 TATTCGGGCATTCGAGCCTAGCAGGCTATAATGCCAGTGA
1 TATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCAGTGA
49097537 ATGAATTCAG
Statistics
Matches: 120, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 82 0.68
90 38 0.32
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (90 bp):
TATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCAGTGAGATACTATTCGGGCCTTCGAGCCTA
GCAGGCTATAATGCCGATAAGATAC
Found at i:49100824 original size:11 final size:11
Alignment explanation
Indices: 49100808--49100832 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
49100798 TTATATATAC
49100808 TAATAAAATAA
1 TAATAAAATAA
49100819 TAATAAAATAA
1 TAATAAAATAA
49100830 TAA
1 TAA
49100833 AATATCATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:49112121 original size:43 final size:43
Alignment explanation
Indices: 49112054--49112163 Score: 184
Period size: 43 Copynumber: 2.6 Consensus size: 43
49112044 TGGTATTAGT
* * *
49112054 TTCGGGCCTTCCTACCTAGTAGGCTTCGTGCCGGTGATGTGTA
1 TTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTA
*
49112097 TTCGGGCCTTCGTGCCTGGCAGGCTTCGTGCCGGTGATGTGTA
1 TTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTA
49112140 TTCGGGCCTTCGTGCCTAGCAGGC
1 TTCGGGCCTTCGTGCCTAGCAGGC
49112164 GTAATGCTGG
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.09, C:0.27, G:0.34, T:0.30
Consensus pattern (43 bp):
TTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTA
Found at i:49112176 original size:43 final size:43
Alignment explanation
Indices: 49112030--49112163 Score: 166
Period size: 43 Copynumber: 3.2 Consensus size: 43
49112020 GGATAAATCC
* * * *
49112030 AGCAGGCCTAGTGCTGGT-AT-TAGT-TTCGGGCCTTCCTACCT
1 AGCAGGCTTAGTGCCGGTGATGT-GTATTCGGGCCTTCGTGCCT
* *
49112071 AGTAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCT
1 AGCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCT
* *
49112114 GGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCT
1 AGCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCT
49112157 AGCAGGC
1 AGCAGGC
49112164 GTAATGCTGG
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
41 14 0.17
42 4 0.05
43 63 0.78
ACGTcount: A:0.11, C:0.25, G:0.34, T:0.30
Consensus pattern (43 bp):
AGCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCT
Found at i:49119312 original size:55 final size:55
Alignment explanation
Indices: 49119186--49119370 Score: 211
Period size: 55 Copynumber: 3.4 Consensus size: 55
49119176 GTACCATTGT
* * * * *
49119186 CATGTCTTGACATGGTCTTAC-GTGGTATCC-TTGCCTTAT-GAACTCACCAATGT
1 CATGCCTTGACATGGTCTTACATTGG-ATCCTTTGCCTTATAGAACTTATCAATGC
*
49119239 CATGCCTTGCCATGGTCTTACATTGGA-CCTTTGCCTTATAGTAACTTATCAATGC
1 CATGCCTTGACATGGTCTTACATTGGATCCTTTGCCTTATAG-AACTTATCAATGC
* * *
49119294 CATGTCTTGACATGGTCTTACA-T-GATTTCTTTACCTTATAGAACTTATCAATGC
1 CATGCCTTGACATGGTCTTACATTGGA-TCCTTTGCCTTATAGAACTTATCAATGC
*
49119348 CATGCCTTGTCATGGTCTTACAT
1 CATGCCTTGACATGGTCTTACAT
49119371 GATATCCTTA
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
52 2 0.02
53 31 0.27
54 38 0.34
55 42 0.37
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (55 bp):
CATGCCTTGACATGGTCTTACATTGGATCCTTTGCCTTATAGAACTTATCAATGC
Found at i:49119413 original size:47 final size:47
Alignment explanation
Indices: 49119358--49119479 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
49119348 CATGCCTTGT
*
49119358 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
49119405 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
49119452 AATGGTCTTACATGGTATCCTTATCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
49119480 GTGCCAATGC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:49122388 original size:6 final size:6
Alignment explanation
Indices: 49122377--49122410 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
49122367 AGGATTGCAA
* *
49122377 ATTTCC ATTTCC ATTTCC ATTTAC ATTACC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
49122411 TTAGAAACCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTTCC
Found at i:49122820 original size:21 final size:21
Alignment explanation
Indices: 49122796--49122839 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
49122786 ATAATATTCG
49122796 TTCTCCCAATATGATTCTATT
1 TTCTCCCAATATGATTCTATT
*
49122817 TTCTCCCAATATGATTCTGTT
1 TTCTCCCAATATGATTCTATT
49122838 TT
1 TT
49122840 ATCTTATTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.23, G:0.07, T:0.50
Consensus pattern (21 bp):
TTCTCCCAATATGATTCTATT
Found at i:49127740 original size:44 final size:41
Alignment explanation
Indices: 49127658--49127773 Score: 117
Period size: 42 Copynumber: 2.7 Consensus size: 41
49127648 AGGATTCTAA
* * * *
49127658 TATGTGATTCGTGTAAGACCACGTTTGGGACGTTGGCAT-T
1 TATGTGATTCGTGTAAGACCATGTCTGGGACATCGGCATCT
*
49127698 GATTTGTGATTTACGTGTAAGACCATGTCTGGGACATCGGCATCT
1 --TATGTGA-TT-CGTGTAAGACCATGTCTGGGACATCGGCATCT
* *
49127743 TATATGAGTTCGTGTAAGACCCTGTCTGGGA
1 TATGTGA-TTCGTGTAAGACCATGTCTGGGA
49127774 TAGTGGCATC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
42 26 0.42
43 9 0.15
44 26 0.42
45 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (41 bp):
TATGTGATTCGTGTAAGACCATGTCTGGGACATCGGCATCT
Found at i:49131811 original size:11 final size:11
Alignment explanation
Indices: 49131788--49131837 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
49131778 TTGTTGTACG
49131788 TGATATG-ACA
1 TGATATGCACA
49131798 TGATATGCACA
1 TGATATGCACA
**
49131809 TGATATG-TTA
1 TGATATGCACA
*
49131819 TGAGATGCACA
1 TGATATGCACA
*
49131830 CGATATGC
1 TGATATGC
49131838 TATGATATAC
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
10 14 0.45
11 17 0.55
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (11 bp):
TGATATGCACA
Found at i:49131812 original size:21 final size:20
Alignment explanation
Indices: 49131788--49131845 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
49131778 TTGTTGTACG
49131788 TGATATGACATGATATGCACA
1 TGATATG-CATGATATGCACA
* *
49131809 TGATATGTTATGAGATGCACA
1 TGATATG-CATGATATGCACA
*
49131830 CGATATGCTATGATAT
1 TGATATGC-ATGATAT
49131846 ACTCATTGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
TGATATGCATGATATGCACA
Found at i:49131950 original size:24 final size:24
Alignment explanation
Indices: 49131893--49131964 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
49131883 AGGAAGTGCG
*
49131893 AAAAG-GGCTTTGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAG-TTATC
49131917 AAAA-AGGGCTTTGCCCCAGTTATC
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
49131941 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
49131965 ATGATAAGGC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:49139851 original size:17 final size:19
Alignment explanation
Indices: 49139823--49139859 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
49139813 TTAAATTAAG
49139823 TGCTAAATAAAATAT-AAA
1 TGCTAAATAAAATATGAAA
49139841 TGCTAAA-AAAATATGAAA
1 TGCTAAATAAAATATGAAA
49139859 T
1 T
49139860 TAAATATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.27
Consensus pattern (19 bp):
TGCTAAATAAAATATGAAA
Found at i:49150434 original size:93 final size:93
Alignment explanation
Indices: 49150325--49150495 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
49150315 GCCCCTAAGT
* *
49150325 GAACTCGAACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
49150390 CAAGTTCGGATGCGTAGTTACATCTCAC
66 CAAGTTCGGATGCGTAGTTACATCTCAC
* * *
49150418 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
49150483 CGAGTTCGGATGC
66 CAAGTTCGGATGC
49150496 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CAAGTTCGGATGCGTAGTTACATCTCAC
Found at i:49150492 original size:46 final size:46
Alignment explanation
Indices: 49150320--49150492 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
49150310 AACCCGCCCC
* * * *
49150320 TAAGTGAACTCGAACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
49150366 TAAATGAACTCGGACTCAACTCAACAAGTTCGGATGCGTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--C--ATTTGCATCCA
* *
49150414 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
49150459 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
49150493 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 3 0.03
46 59 0.56
47 28 0.27
48 3 0.03
49 1 0.01
50 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:49157994 original size:46 final size:46
Alignment explanation
Indices: 49157918--49158826 Score: 1655
Period size: 46 Copynumber: 19.7 Consensus size: 46
49157908 AACCCGCCCC
* * *
49157918 TAAGTGAACTCAGACTCAACTCAACGAGTTC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-CATTTGCATCCA
* * * *
49157964 TAAATGAACTCGGACTCAACTCAACTAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
49158012 TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
49158057 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
49158103 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
49158149 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
49158195 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
49158241 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
49158287 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
49158333 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
49158379 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
49158425 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
49158471 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
49158517 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
49158563 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
49158609 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
49158655 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
49158701 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
49158747 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
49158793 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
49158827 TGCTCAACCA
Statistics
Matches: 839, Mismatches: 17, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
43 6 0.01
44 2 0.00
45 2 0.00
46 792 0.94
47 29 0.03
48 2 0.00
49 2 0.00
50 4 0.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:49163504 original size:24 final size:24
Alignment explanation
Indices: 49163458--49163504 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
49163448 ATTTAAGAAA
* *
49163458 TTAATAATTATAATAATATAATAT
1 TTAATAATTATAATAAAAAAATAT
49163482 TTAATAA-TATAATAAAAGAAATA
1 TTAATAATTATAATAAAA-AAATA
49163505 ATAAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
TTAATAATTATAATAAAAAAATAT
Found at i:49163506 original size:20 final size:19
Alignment explanation
Indices: 49163483--49163528 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
49163473 ATATAATATT
49163483 TAATAATATAATAAAAGAAA
1 TAATAATATAAT-AAAGAAA
*
49163503 TAATAAAATAATAAAGAAA
1 TAATAATATAATAAAGAAA
49163522 TAA-AATA
1 TAATAATA
49163529 AAGAAAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 3 0.12
19 10 0.42
20 11 0.46
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (19 bp):
TAATAATATAATAAAGAAA
Found at i:49163537 original size:19 final size:18
Alignment explanation
Indices: 49163495--49163537 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
49163485 ATAATATAAT
* *
49163495 AAAAGAAATAATAAAATA
1 AAAAGAAATAAAAAAAGA
49163513 ATAAAGAAATAAAATAAAGA
1 A-AAAGAAATAAAA-AAAGA
49163533 AAAAG
1 AAAAG
49163538 GAAAGAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.71
20 5 0.24
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (18 bp):
AAAAGAAATAAAAAAAGA
Found at i:49163590 original size:12 final size:12
Alignment explanation
Indices: 49163566--49163606 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
49163556 ATAGAACAGG
49163566 GAAAGAAAG-AAA
1 GAAA-AAAGAAAA
49163578 GAAAAAAGAAAA
1 GAAAAAAGAAAA
*
49163590 G-AAAAAGAAAG
1 GAAAAAAGAAAA
49163601 GAAAAA
1 GAAAAA
49163607 TAGGGTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 14 0.54
12 12 0.46
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
GAAAAAAGAAAA
Found at i:49169796 original size:24 final size:24
Alignment explanation
Indices: 49169750--49169796 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
49169740 ATTTAAGAAA
* *
49169750 TTAATAATTATAATAATATAATAT
1 TTAATAATTATAATAAAAAAATAT
49169774 TTAATAA-TATAATAAAAGAAATA
1 TTAATAATTATAATAAAA-AAATA
49169797 ATAAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
TTAATAATTATAATAAAAAAATAT
Found at i:49169798 original size:20 final size:19
Alignment explanation
Indices: 49169775--49169820 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
49169765 ATATAATATT
49169775 TAATAATATAATAAAAGAAA
1 TAATAATATAAT-AAAGAAA
*
49169795 TAATAAAATAATAAAGAAA
1 TAATAATATAATAAAGAAA
49169814 TAA-AATA
1 TAATAATA
49169821 AAGAAAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 3 0.12
19 10 0.42
20 11 0.46
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (19 bp):
TAATAATATAATAAAGAAA
Found at i:49169829 original size:19 final size:18
Alignment explanation
Indices: 49169787--49169829 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
49169777 ATAATATAAT
* *
49169787 AAAAGAAATAATAAAATA
1 AAAAGAAATAAAAAAAGA
49169805 ATAAAGAAATAAAATAAAGA
1 A-AAAGAAATAAAA-AAAGA
49169825 AAAAG
1 AAAAG
49169830 GAAAGAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.71
20 5 0.24
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (18 bp):
AAAAGAAATAAAAAAAGA
Found at i:49169882 original size:12 final size:12
Alignment explanation
Indices: 49169858--49169898 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
49169848 ATAGAACAGG
49169858 GAAAGAAAG-AAA
1 GAAA-AAAGAAAA
49169870 GAAAAAAGAAAA
1 GAAAAAAGAAAA
*
49169882 G-AAAAAGAAAG
1 GAAAAAAGAAAA
49169893 GAAAAA
1 GAAAAA
49169899 TAGGGTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 14 0.54
12 12 0.46
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
GAAAAAAGAAAA
Done.