Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007801.1 Hibiscus syriacus cultivar Beakdansim tig00110118_pilon, whole genome shotgun sequence
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: 951604
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:612463 original size:109 final size:109
Alignment explanation
Indices: 612340--613092 Score: 1116
Period size: 109 Copynumber: 6.9 Consensus size: 109
612330 TATATGGTAG
** * * * *
612340 TTCATCAACTCATGATGAATTTTGTGAATTTGCACACATAGTGCTTGTAAGGTTATTTATCAACT
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACT
612405 CATGATGAATTCCGTGGAATGCACACTTAGTGCCTGTACGATTA
66 CATGATGAATTCCGTGGAATGCACACTTAGTGCCTGTACGATTA
* * *
612449 TTCATCAACTCATGATGAATTTCGTGGA-ATGCACACTTAGTGCATGTACGGTTATTCATCAACT
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACT
* * *
612513 CATGATGAATTTCTTGGAACGCACACTTAGTGCCTGTAC-AGTTA
66 CATGATGAATTCCGTGGAATGCACACTTAGTGCCTGTACGA-TTA
* *
612557 TTCATCAACTCATGATAAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTATTCATAAACT
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACT
* * * *
612622 CATTATGAATTCCATGGAATGCACACTTAGTGCTTGTACGGTTA
66 CATGATGAATTCCGTGGAATGCACACTTAGTGCCTGTACGATTA
* * * *
612666 TTCACCAACTCATGATGAATTCCATGGATTTGCACACATAGTGCTTGTACGATTATTCATCAACT
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACT
* * * *
612731 CATGATGAATTCCATTGAATTCACACTTAGTGCCTGTACGGTTA
66 CATGATGAATTCCGTGGAATGCACACTTAGTGCCTGTACGATTA
*
612775 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGATTATTCATCAACT
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACT
612840 CATGATGAATTCCGTGGAATGCACACTTAGTGCCTGTACGGA-TA
66 CATGATGAATTCCGTGGAATGCACACTTAGTGCCTGTAC-GATTA
* *
612884 TTCATCAACTCATGATGAATTCTGTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAACT
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACT
* *
612949 CATGATGAATTCCGTGGAATGAACACTTAGTGCATGTACGATTA
66 CATGATGAATTCCGTGGAATGCACACTTAGTGCCTGTACGATTA
* * * * * **
612993 TTCATCAACTAACGATGAATTCCGTAGATTTTCACAAATAGTGTTTGTACGGTTATTCATCAACT
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACT
*
613058 CATGATGAATTCCGTGGAATGCACACATAGTGCCT
66 CATGATGAATTCCGTGGAATGCACACTTAGTGCCT
613093 TTTGGTAATC
Statistics
Matches: 585, Mismatches: 54, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
107 1 0.00
108 98 0.17
109 485 0.83
110 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (109 bp):
TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACT
CATGATGAATTCCGTGGAATGCACACTTAGTGCCTGTACGATTA
Found at i:617768 original size:81 final size:81
Alignment explanation
Indices: 617613--617948 Score: 359
Period size: 81 Copynumber: 4.1 Consensus size: 81
617603 TAGCTAGTCT
* * * * * *
617613 ATTATTCTTTTACTCAACAATGCTTAACCATTTAGCTAACCGGCATAATTGACACCTTTCTGCCA
1 ATTATCCTTTTACTCAACAGTACTTAACCATTCAGTTAACCGGCATAATTGACACATTTCTGCCA
* *
617678 ATTGCACAGTTATGAC
66 ATTGCACAGTTAGGCC
* * * * * *
617694 ATTATCTTTTTACCCAACAGTGCTTAACCATTTAGTTAACCGGCATAATTGACACATTTTTTCCA
1 ATTATCCTTTTACTCAACAGTACTTAACCATTCAGTTAACCGGCATAATTGACACATTTCTGCCA
617759 ATTGCACAGTTAGGCC
66 ATTGCACAGTTAGGCC
* * * * * * * * * **
617775 AATATCCTTTTACTCAACGGTATTTAACCGTTCATTTAACTGGAATCATTGACACATTTTTGATA
1 ATTATCCTTTTACTCAACAGTACTTAACCATTCAGTTAACCGGCATAATTGACACATTTCTGCCA
617840 ATTGCACAGTTAGGCC
66 ATTGCACAGTTAGGCC
* * * * * *
617856 ATTATCCTTTTACTTAACAGTATTTAATCGTTCA-TCTAACTGGCATAATTGACACCTTTCTGCC
1 ATTATCCTTTTACTCAACAGTACTTAACCATTCAGT-TAACCGGCATAATTGACACATTTCTGCC
* *
617920 AATTGCACAGTTAAGCT
65 AATTGCACAGTTAGGCC
617937 ATTATCCTTTTA
1 ATTATCCTTTTA
617949 TTTTGGACTA
Statistics
Matches: 217, Mismatches: 37, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
80 1 0.00
81 216 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (81 bp):
ATTATCCTTTTACTCAACAGTACTTAACCATTCAGTTAACCGGCATAATTGACACATTTCTGCCA
ATTGCACAGTTAGGCC
Found at i:618179 original size:54 final size:54
Alignment explanation
Indices: 618068--618655 Score: 901
Period size: 54 Copynumber: 10.8 Consensus size: 54
618058 GCACATGTAG
618068 TTCATCAACTCATGATGAATTCCGT-GAATTTGCACACATAGTGCATGTACGGTTA
1 TTCATCAACTCATGATGAATTCCGTGGAA--TGCACACATAGTGCATGTACGGTTA
* *
618123 TTCATCAACTCATGATGAATTCCGTGGAATGCACACTTAGTGTATGTACGGTTA
1 TTCATCAACTCATGATGAATTCCGTGGAATGCACACATAGTGCATGTACGGTTA
*
618177 TTCATCAACTCATGATGAATTCCGTGGAATGCACACTTAGTGCATGTACGGTTA
1 TTCATCAACTCATGATGAATTCCGTGGAATGCACACATAGTGCATGTACGGTTA
618231 TTCATCAACTCATGATGAATTCCGTGGAATGCACACATAGTGTC-TGTACGGTTA
1 TTCATCAACTCATGATGAATTCCGTGGAATGCACACATAGTG-CATGTACGGTTA
* * * **
618285 TTCATCAACTCATGATGAATTCCGTGAAATGCACACTTAGTGCCTGTACAATTA
1 TTCATCAACTCATGATGAATTCCGTGGAATGCACACATAGTGCATGTACGGTTA
* * * *
618339 TTCATCAACTCATGTTGAATTCCGTGGATTTGCACACATAGTGCCTGTACGATTA
1 TTCATCAACTCATGATGAATTCCGTGGA-ATGCACACATAGTGCATGTACGGTTA
* * *
618394 TTCATCAACTCATGATGAATTCCGTGGAATTCAAACTTAGTGCATGTACGGTTA
1 TTCATCAACTCATGATGAATTCCGTGGAATGCACACATAGTGCATGTACGGTTA
*
618448 TTCATCAACTCATGATGAATTCCGTGGATCTGCACACATAGTGCATGTACGGTTTA
1 TTCATCAACTCATGATGAATTCCGTGGA-ATGCACACATAGTGCATGTACGG-TTA
* * * *
618504 TTCATCAACTCATGATGAATTCTGTGGAATTCACACTTAGTGCCTGTACGGTTA
1 TTCATCAACTCATGATGAATTCCGTGGAATGCACACATAGTGCATGTACGGTTA
*
618558 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTA
1 TTCATCAACTCATGATGAATTCCGTGGA-ATGCACACATAGTGCATGTACGGTTA
*
618613 TTCATCAACTCATGATGAATTCCGTGGAATGCACACCTAGTGC
1 TTCATCAACTCATGATGAATTCCGTGGAATGCACACATAGTGC
618656 CGTTTGGTAA
Statistics
Matches: 490, Mismatches: 36, Indels: 15
0.91 0.07 0.03
Matches are distributed among these distances:
53 1 0.00
54 292 0.60
55 164 0.33
56 33 0.07
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (54 bp):
TTCATCAACTCATGATGAATTCCGTGGAATGCACACATAGTGCATGTACGGTTA
Found at i:618432 original size:109 final size:109
Alignment explanation
Indices: 618068--618655 Score: 941
Period size: 109 Copynumber: 5.4 Consensus size: 109
618058 GCACATGTAG
*
618068 TTCATCAACTCATGATGAATTCCGT-GAATTTGCACACATAGTGCATGTACGGTTATTCATCAAC
1 TTCATCAACTCATGATGAATTCCGTGGAA--TGCACACTTAGTGCATGTACGGTTATTCATCAAC
* *
618132 TCATGATGAATTCCGTGGA-ATGCACACTTAGTGTATGTACGGTTA
64 TCATGATGAATTCCGTGGATATGCACACATAGTGCATGTACGGTTA
618177 TTCATCAACTCATGATGAATTCCGTGGAATGCACACTTAGTGCATGTACGGTTATTCATCAACTC
1 TTCATCAACTCATGATGAATTCCGTGGAATGCACACTTAGTGCATGTACGGTTATTCATCAACTC
618242 ATGATGAATTCCGTGGA-ATGCACACATAGTGTC-TGTACGGTTA
66 ATGATGAATTCCGTGGATATGCACACATAGTG-CATGTACGGTTA
* * **
618285 TTCATCAACTCATGATGAATTCCGTGAAATGCACACTTAGTGCCTGTACAATTATTCATCAACTC
1 TTCATCAACTCATGATGAATTCCGTGGAATGCACACTTAGTGCATGTACGGTTATTCATCAACTC
* * * *
618350 ATGTTGAATTCCGTGGATTTGCACACATAGTGCCTGTACGATTA
66 ATGATGAATTCCGTGGATATGCACACATAGTGCATGTACGGTTA
* *
618394 TTCATCAACTCATGATGAATTCCGTGGAATTCAAACTTAGTGCATGTACGGTTATTCATCAACTC
1 TTCATCAACTCATGATGAATTCCGTGGAATGCACACTTAGTGCATGTACGGTTATTCATCAACTC
*
618459 ATGATGAATTCCGTGGATCTGCACACATAGTGCATGTACGGTTTA
66 ATGATGAATTCCGTGGATATGCACACATAGTGCATGTACGG-TTA
* * *
618504 TTCATCAACTCATGATGAATTCTGTGGAATTCACACTTAGTGCCTGTACGGTTATTCATCAACTC
1 TTCATCAACTCATGATGAATTCCGTGGAATGCACACTTAGTGCATGTACGGTTATTCATCAACTC
*
618569 ATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTA
66 ATGATGAATTCCGTGGATATGCACACATAGTGCATGTACGGTTA
*
618613 TTCATCAACTCATGATGAATTCCGTGGAATGCACACCTAGTGC
1 TTCATCAACTCATGATGAATTCCGTGGAATGCACACTTAGTGC
618656 CGTTTGGTAA
Statistics
Matches: 447, Mismatches: 27, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
108 153 0.34
109 186 0.42
110 108 0.24
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (109 bp):
TTCATCAACTCATGATGAATTCCGTGGAATGCACACTTAGTGCATGTACGGTTATTCATCAACTC
ATGATGAATTCCGTGGATATGCACACATAGTGCATGTACGGTTA
Found at i:619089 original size:20 final size:22
Alignment explanation
Indices: 619064--619200 Score: 77
Period size: 20 Copynumber: 6.7 Consensus size: 22
619054 TCGATGTTCA
619064 ATGGTATCGATACCAT-CCTT-
1 ATGGTATCGATACCATCCCTTC
619084 ATGGTATCGATA-C-TCCCTTC
1 ATGGTATCGATACCATCCCTTC
* *
619104 TTGGTATCGATACCA---CTTGA
1 ATGGTATCGATACCATCCCTT-C
*
619124 ATAGGTATCGATA-C-TCCCCTC
1 AT-GGTATCGATACCATCCCTTC
* *
619145 TTGGTATCGATACCA---CTTGA
1 ATGGTATCGATACCATCCCTT-C
*
619165 ATAGGTATCGATA-CA-CCCCTC
1 AT-GGTATCGATACCATCCCTTC
*
619186 TTGGTATCGATACCA
1 ATGGTATCGATACCA
619201 CTTGAATAGG
Statistics
Matches: 89, Mismatches: 12, Indels: 31
0.67 0.09 0.23
Matches are distributed among these distances:
18 1 0.01
19 10 0.11
20 48 0.54
21 26 0.29
22 4 0.04
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (22 bp):
ATGGTATCGATACCATCCCTTC
Found at i:619132 original size:21 final size:21
Alignment explanation
Indices: 619106--619219 Score: 110
Period size: 21 Copynumber: 5.5 Consensus size: 21
619096 CTCCCTTCTT
619106 GGTATCGATACCACTTGAATA
1 GGTATCGATACCACTTGAATA
* * * *
619127 GGTATCGATACTCCCCT--CTT
1 GGTATCGATAC-CACTTGAATA
619147 GGTATCGATACCACTTGAATA
1 GGTATCGATACCACTTGAATA
* * * *
619168 GGTATCGATACACCCCT--CTT
1 GGTATCGATAC-CACTTGAATA
619188 GGTATCGATACCACTTGAATA
1 GGTATCGATACCACTTGAATA
619209 GGTATCGATAC
1 GGTATCGATAC
619220 TACTCAACAG
Statistics
Matches: 71, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
19 6 0.08
20 24 0.34
21 35 0.49
22 6 0.08
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (21 bp):
GGTATCGATACCACTTGAATA
Found at i:619140 original size:41 final size:41
Alignment explanation
Indices: 619065--619220 Score: 255
Period size: 41 Copynumber: 3.8 Consensus size: 41
619055 CGATGTTCAA
*
619065 TGGTATCGATACCATCCTT--AT-GGTATCGATACTCCCTTCT
1 TGGTATCGATACCA--CTTGAATAGGTATCGATACTCCCCTCT
619105 TGGTATCGATACCACTTGAATAGGTATCGATACTCCCCTCT
1 TGGTATCGATACCACTTGAATAGGTATCGATACTCCCCTCT
*
619146 TGGTATCGATACCACTTGAATAGGTATCGATACACCCCTCT
1 TGGTATCGATACCACTTGAATAGGTATCGATACTCCCCTCT
619187 TGGTATCGATACCACTTGAATAGGTATCGATACT
1 TGGTATCGATACCACTTGAATAGGTATCGATACT
619221 ACTCAACAGA
Statistics
Matches: 110, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
38 3 0.03
40 16 0.15
41 91 0.83
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (41 bp):
TGGTATCGATACCACTTGAATAGGTATCGATACTCCCCTCT
Found at i:619309 original size:16 final size:16
Alignment explanation
Indices: 619288--619319 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
619278 GATACCCGTG
619288 CCCAGAATTTCCAATT
1 CCCAGAATTTCCAATT
619304 CCCAGAATTTCCAATT
1 CCCAGAATTTCCAATT
619320 TTTAGCCCGA
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:0.31, C:0.31, G:0.06, T:0.31
Consensus pattern (16 bp):
CCCAGAATTTCCAATT
Found at i:624912 original size:18 final size:18
Alignment explanation
Indices: 624889--624924 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
624879 CACTAATCTT
*
624889 AAGTTACTGATTCTTAGG
1 AAGTTACTAATTCTTAGG
*
624907 AAGTTACTAATTTTTAGG
1 AAGTTACTAATTCTTAGG
624925 GATCATTTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (18 bp):
AAGTTACTAATTCTTAGG
Found at i:628994 original size:27 final size:28
Alignment explanation
Indices: 628957--629013 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 28
628947 CGATTTAGAC
628957 ATTCTTTCCTCACAACAAAAGGAAATTA
1 ATTCTTTCCTCACAACAAAAGGAAATTA
628985 ATTC-TTCCTCACAACAAAAGGAAATTA
1 ATTCTTTCCTCACAACAAAAGGAAATTA
629012 AT
1 AT
629014 ACAAACCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (28 bp):
ATTCTTTCCTCACAACAAAAGGAAATTA
Found at i:630507 original size:20 final size:20
Alignment explanation
Indices: 630482--630519 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
630472 TAACCTCGTG
630482 ACATGAAGAAATAAAAAACA
1 ACATGAAGAAATAAAAAACA
630502 ACATGAAGAAATAAAAAA
1 ACATGAAGAAATAAAAAA
630520 AAATCTGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.71, C:0.08, G:0.11, T:0.11
Consensus pattern (20 bp):
ACATGAAGAAATAAAAAACA
Found at i:631002 original size:35 final size:35
Alignment explanation
Indices: 630956--631025 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
630946 GTTTACCTTT
630956 AAAATAGACACTAATCTTAAGTAATTGATTCTTAG
1 AAAATAGACACTAATCTTAAGTAATTGATTCTTAG
* * *
630991 AAAATATACACTAATCTTAAGTTATTGATTTTTAG
1 AAAATAGACACTAATCTTAAGTAATTGATTCTTAG
631026 GAAGTTGCTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (35 bp):
AAAATAGACACTAATCTTAAGTAATTGATTCTTAG
Found at i:632115 original size:11 final size:10
Alignment explanation
Indices: 632083--632115 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
632073 TCTAAATTGG
*
632083 TTTACATGTT
1 TTTAAATGTT
632093 TTTAAATGTT
1 TTTAAATGTT
632103 TTTAAATGTT
1 TTTAAATGTT
632113 TTT
1 TTT
632116 GAGTTGATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.24, C:0.03, G:0.09, T:0.64
Consensus pattern (10 bp):
TTTAAATGTT
Found at i:634556 original size:31 final size:31
Alignment explanation
Indices: 634518--634580 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
634508 TTTATAATTG
*
634518 AATAATAGTAGAAAAATCGTACGAACTAAGC
1 AATAATAGTAGAAAAATCGTACGAACCAAGC
*
634549 AATAATAGTAGAAAAATCGTATGAACCAAGC
1 AATAATAGTAGAAAAATCGTACGAACCAAGC
634580 A
1 A
634581 GCCTTGTGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.19
Consensus pattern (31 bp):
AATAATAGTAGAAAAATCGTACGAACCAAGC
Found at i:636223 original size:12 final size:12
Alignment explanation
Indices: 636208--636244 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
636198 AAACATGTTC
636208 ACAAACATATAA
1 ACAAACATATAA
*
636220 ACAAACA-CTAA
1 ACAAACATATAA
636231 ACAAACATATAA
1 ACAAACATATAA
636243 AC
1 AC
636245 GAATGTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.65, C:0.22, G:0.00, T:0.14
Consensus pattern (12 bp):
ACAAACATATAA
Found at i:636380 original size:35 final size:32
Alignment explanation
Indices: 636299--636382 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 32
636289 GAACACCTTC
636299 AAAAATAAATAAACGAACACGAACACAATATT
1 AAAAATAAATAAACGAACACGAACACAATATT
* * *
636331 AAAAAT--TTAAACGAAC-CGAGCACAAACATTTTT
1 AAAAATAAATAAACGAACACGA--AC--ACAATATT
636364 AAAAATAAATAAACGAACA
1 AAAAATAAATAAACGAACA
636383 TATACACAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
29 3 0.07
30 9 0.22
31 2 0.05
32 6 0.15
33 12 0.29
35 9 0.22
ACGTcount: A:0.60, C:0.15, G:0.07, T:0.18
Consensus pattern (32 bp):
AAAAATAAATAAACGAACACGAACACAATATT
Found at i:637612 original size:16 final size:16
Alignment explanation
Indices: 637579--637612 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
637569 TTTTGGATTG
*
637579 ATTTGAATTTAATAAA
1 ATTTGAATTAAATAAA
*
637595 ATTTGAATTAAATTAA
1 ATTTGAATTAAATAAA
637611 AT
1 AT
637613 CGAATATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
ATTTGAATTAAATAAA
Found at i:655409 original size:31 final size:31
Alignment explanation
Indices: 655374--655434 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
655364 TCGCGAGCCT
* *
655374 AAAATTTTCAAGCTCGACTCGAACTCGAAAG
1 AAAATATTCAAACTCGACTCGAACTCGAAAG
*
655405 AAAATATTGAAACTCGACTCGAACTCGAAA
1 AAAATATTCAAACTCGACTCGAACTCGAAA
655435 AGGCTCGAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (31 bp):
AAAATATTCAAACTCGACTCGAACTCGAAAG
Found at i:655531 original size:29 final size:27
Alignment explanation
Indices: 655499--655584 Score: 72
Period size: 29 Copynumber: 3.2 Consensus size: 27
655489 TCGATTGAAG
655499 CTCGATTTTGAGCTCGATTCAAGCTCGAA
1 CTCGA-TTTGAGCTCG-TTCAAGCTCGAA
** *
655528 CTCGATTCAAGCTCG---AA-CTCAAA
1 CTCGATTTGAGCTCGTTCAAGCTCGAA
*
655551 CTCGAATTTGAGCTCGGTTCAAGCTCGGA
1 CTCG-ATTTGAGCTC-GTTCAAGCTCGAA
655580 CTCGA
1 CTCGA
655585 ACTCGAAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
23 9 0.20
24 10 0.23
25 1 0.02
28 11 0.25
29 13 0.30
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (27 bp):
CTCGATTTGAGCTCGTTCAAGCTCGAA
Found at i:655533 original size:17 final size:17
Alignment explanation
Indices: 655511--655547 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
655501 CGATTTTGAG
655511 CTCGATTCAAGCTCGAA
1 CTCGATTCAAGCTCGAA
655528 CTCGATTCAAGCTCGAA
1 CTCGATTCAAGCTCGAA
655545 CTC
1 CTC
655548 AAACTCGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.24
Consensus pattern (17 bp):
CTCGATTCAAGCTCGAA
Found at i:655542 original size:11 final size:11
Alignment explanation
Indices: 655486--655577 Score: 50
Period size: 11 Copynumber: 8.5 Consensus size: 11
655476 TCGAGACTCG
*
655486 AGCTCGATTGA
1 AGCTCGATTCA
**
655497 AGCTCGATTTTG
1 AGCTCGA-TTCA
655509 AGCTCGATTCA
1 AGCTCGATTCA
655520 AGCTCG----A
1 AGCTCGATTCA
655527 A-CTCGATTCA
1 AGCTCGATTCA
*
655537 AGCTCGAACTCA
1 AGCTCG-ATTCA
* **
655549 AACTCGAATTTG
1 AGCTCG-ATTCA
*
655561 AGCTCGGTTCA
1 AGCTCGATTCA
655572 AGCTCG
1 AGCTCG
655578 GACTCGAACT
Statistics
Matches: 61, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
6 4 0.07
7 2 0.03
10 2 0.03
11 27 0.44
12 26 0.43
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (11 bp):
AGCTCGATTCA
Found at i:655588 original size:35 final size:35
Alignment explanation
Indices: 655528--655596 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
655518 CAAGCTCGAA
*
655528 CTCGATTCAAGCTCGAACTCAAACTCGAATTTGAG
1 CTCGATTCAAGCTCGAACTCAAACTCGAAATTGAG
* * *
655563 CTCGGTTCAAGCTCGGACTCGAACTCGAAATTGA
1 CTCGATTCAAGCTCGAACTCAAACTCGAAATTGA
655597 ACATATCAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (35 bp):
CTCGATTCAAGCTCGAACTCAAACTCGAAATTGAG
Found at i:656164 original size:23 final size:25
Alignment explanation
Indices: 656138--656186 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
656128 ACTCTTTCAG
656138 ATAAAAA-ATTATCCATCACAATAATA
1 ATAAAAACATTATCCATCAC-A-AATA
656164 ATAAAAACATTATCCATCACAAA
1 ATAAAAACATTATCCATCACAAA
656187 CCGTTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 2 0.09
26 8 0.36
27 12 0.55
ACGTcount: A:0.57, C:0.18, G:0.00, T:0.24
Consensus pattern (25 bp):
ATAAAAACATTATCCATCACAAATA
Found at i:656330 original size:22 final size:22
Alignment explanation
Indices: 656302--656357 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
656292 AAAGATAGAA
656302 AACTTTAATGAGCTTGGATCGG
1 AACTTTAATGAGCTTGGATCGG
656324 AACTTTAATGAGCTTGGATCGG
1 AACTTTAATGAGCTTGGATCGG
656346 AACTTTAATGAG
1 AACTTTAATGAG
656358 ACTGCTAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.32
Consensus pattern (22 bp):
AACTTTAATGAGCTTGGATCGG
Found at i:656670 original size:15 final size:15
Alignment explanation
Indices: 656647--656680 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
656637 GAATGTTTTG
656647 AGGGAGAAATGAATT
1 AGGGAGAAATGAATT
*
656662 AGGGGGAAATGAATT
1 AGGGAGAAATGAATT
656677 AGGG
1 AGGG
656681 TAAGAGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.18
Consensus pattern (15 bp):
AGGGAGAAATGAATT
Found at i:656741 original size:17 final size:17
Alignment explanation
Indices: 656719--656751 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
656709 TTAGTGTTCC
656719 TTCAATT-TGTGCTTGTT
1 TTCAATTGTGT-CTTGTT
656736 TTCAATTGTGTCTTGT
1 TTCAATTGTGTCTTGT
656752 AATTTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.58
Consensus pattern (17 bp):
TTCAATTGTGTCTTGTT
Found at i:657053 original size:7 final size:7
Alignment explanation
Indices: 657041--657102 Score: 52
Period size: 7 Copynumber: 8.9 Consensus size: 7
657031 GTGTATAAAT
657041 TAAACCA
1 TAAACCA
657048 TAAACCA
1 TAAACCA
*
657055 TAAATCA
1 TAAACCA
* * *
657062 TGAATCT
1 TAAACCA
*
657069 TAAACCC
1 TAAACCA
*
657076 TAAACCC
1 TAAACCA
*
657083 TAAACCC
1 TAAACCA
*
657090 TAAACTA
1 TAAACCA
657097 TAAACC
1 TAAACC
657103 CTATCACATA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:657086 original size:14 final size:14
Alignment explanation
Indices: 657041--657105 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
657031 GTGTATAAAT
*
657041 TAAACCATAAACCA
1 TAAACCCTAAACCA
* * * * *
657055 TAAATCATGAATCT
1 TAAACCCTAAACCA
*
657069 TAAACCCTAAACCC
1 TAAACCCTAAACCA
*
657083 TAAACCCTAAACTA
1 TAAACCCTAAACCA
657097 TAAACCCTA
1 TAAACCCTA
657106 TCACATAATT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 40 1.00
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:657202 original size:14 final size:14
Alignment explanation
Indices: 657183--657212 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
657173 TATAATTATC
*
657183 AATAATGTATTTTT
1 AATAATGTAATTTT
657197 AATAATGTAATTTT
1 AATAATGTAATTTT
657211 AA
1 AA
657213 AAAATCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:668251 original size:35 final size:34
Alignment explanation
Indices: 668164--668251 Score: 86
Period size: 35 Copynumber: 2.5 Consensus size: 34
668154 AAAATTCGAA
* * *
668164 CAAATTTAAACACTTAAGAAATTGAATTACATAATT
1 CAAATATAAA-ACTTAA-AAATTCAATTACATAATC
* ** *
668200 CAAACATAAAGTTTAAAAATTCAATTTGCATAATC
1 CAAATATAAAACTTAAAAATTCAA-TTACATAATC
668235 CAAATATAAAACTTAAA
1 CAAATATAAAACTTAAA
668252 TGATAAAAGT
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
34 7 0.17
35 26 0.63
36 8 0.20
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (34 bp):
CAAATATAAAACTTAAAAATTCAATTACATAATC
Found at i:673931 original size:30 final size:30
Alignment explanation
Indices: 673897--673956 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
673887 CCCGAAGGAC
*
673897 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCAGTAA
673927 CTATCCAGAGGTCATAAAGATCCTCAGTAA
1 CTATCCAGAGGTCATAAAGATCCTCAGTAA
673957 ACTGTCCATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCAGTAA
Found at i:678722 original size:30 final size:30
Alignment explanation
Indices: 678688--678777 Score: 144
Period size: 30 Copynumber: 3.0 Consensus size: 30
678678 CCCGAAGGAC
*
678688 CTATCCAGAGGTCATAAAGATCATTGGTAA
1 CTATCCAGAGGTCATAAAGATCATCGGTAA
*
678718 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCATCGGTAA
* *
678748 CTATCCAGAGGTCATAATGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCATCGGTAA
678778 ACTGTCCATA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 57 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCATCGGTAA
Found at i:687974 original size:14 final size:15
Alignment explanation
Indices: 687947--687982 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
687937 TTGTTTAACT
687947 GAAAATATTTTTTCG
1 GAAAATATTTTTTCG
687962 GAAAATA-TTTTTCG
1 GAAAATATTTTTTCG
*
687976 TAAAATA
1 GAAAATA
687983 AATTATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.42
Consensus pattern (15 bp):
GAAAATATTTTTTCG
Found at i:688177 original size:20 final size:20
Alignment explanation
Indices: 688125--688178 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
688115 AATTTAATAT
*
688125 TATTATTTTTAAAATATTAAAA
1 TATTATTTTT--ATTATTAAAA
*
688147 TAGTT-TATTTATTATTAAAA
1 TA-TTATTTTTATTATTAAAA
688167 TATTATTTTTAT
1 TATTATTTTTAT
688179 AATTTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 2 0.07
20 17 0.63
22 6 0.22
23 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TATTATTTTTATTATTAAAA
Found at i:688186 original size:14 final size:14
Alignment explanation
Indices: 688154--688205 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
688144 AAATAGTTTA
688154 TTTATTATTAAAAT
1 TTTATTATTAAAAT
* * *
688168 ATTATTTTTATAAT
1 TTTATTATTAAAAT
*
688182 TTTATTAATAAAAAT
1 TTTATT-ATTAAAAT
*
688197 TTTAATATT
1 TTTATTATT
688206 GGTATATTTG
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTATTATTAAAAT
Found at i:688301 original size:23 final size:23
Alignment explanation
Indices: 688271--688318 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
688261 AATAGGTTTA
688271 TATTATATTTTAAAAATATTAAT
1 TATTATATTTTAAAAATATTAAT
* *
688294 TATTATATTTTAAATATATTTAT
1 TATTATATTTTAAAAATATTAAT
688317 TA
1 TA
688319 AAATATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TATTATATTTTAAAAATATTAAT
Found at i:688324 original size:23 final size:23
Alignment explanation
Indices: 688275--688343 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
688265 GGTTTATATT
* * **
688275 ATATTTTAAAAATATTAATTATT
1 ATATTTTAAATATATTTATTAAA
688298 ATATTTTAAATATATTTATTAAA
1 ATATTTTAAATATATTTATTAAA
*
688321 ATATTATTATAT-TATTATATTAA
1 ATATT-TTAAATATATT-TATTAA
688344 TATGAAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
23 28 0.72
24 11 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATATTTTAAATATATTTATTAAA
Found at i:688332 original size:8 final size:8
Alignment explanation
Indices: 688287--688342 Score: 55
Period size: 8 Copynumber: 7.2 Consensus size: 8
688277 ATTTTAAAAA
688287 TATTA-AT
1 TATTATAT
688294 TATTATAT
1 TATTATAT
*
688302 T-TTAAAT
1 TATTATAT
688309 ATATT-TAT
1 -TATTATAT
**
688317 TAAAATAT
1 TATTATAT
688325 TATTATAT
1 TATTATAT
688333 TATTATAT
1 TATTATAT
688341 TA
1 TA
688343 ATATGAAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
7 12 0.31
8 25 0.64
9 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TATTATAT
Found at i:688446 original size:54 final size:54
Alignment explanation
Indices: 688312--688449 Score: 158
Period size: 54 Copynumber: 2.5 Consensus size: 54
688302 TTTAAATATA
688312 TTTATTAA-AATATTATTATATTATTATATTAATATGAAATATAAAAATAATATAAT
1 TTTATTAATAAT-TTATTATA-TATTAT-TTAATATGAAATATAAAAATAATATAAT
* *
688368 TCATTATTAATAATTTAATA-ATATTATTT-CTATGAAAT-TAATAAATAATATAAAT
1 T--TTATTAATAATTTATTATATATTATTTAATATGAAATATAA-AAATAATAT-AAT
*
688423 TTTATTAATAATTTCTTATATATTATT
1 TTTATTAATAATTTATTATATATTATT
688450 AAAATAAAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
53 18 0.25
54 25 0.35
55 6 0.08
56 7 0.10
57 1 0.01
58 12 0.17
59 3 0.04
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (54 bp):
TTTATTAATAATTTATTATATATTATTTAATATGAAATATAAAAATAATATAAT
Found at i:688488 original size:23 final size:23
Alignment explanation
Indices: 688458--688508 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
688448 TTAAAATAAA
688458 AATATAATAT-ATTATATTATTAT
1 AATATAAT-TGATTATATTATTAT
*
688481 AATATAATTGATTATTTTATTAT
1 AATATAATTGATTATATTATTAT
688504 AATAT
1 AATAT
688509 TAAAAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
AATATAATTGATTATATTATTAT
Found at i:688494 original size:18 final size:19
Alignment explanation
Indices: 688460--688506 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
688450 AAAATAAAAA
*
688460 TATAATAT-ATTATATTAT
1 TATAATATAATTAGATTAT
688478 TATAATATAATT-GATTAT
1 TATAATATAATTAGATTAT
* *
688496 TTTATTATAAT
1 TATAATATAAT
688507 ATTAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TATAATATAATTAGATTAT
Found at i:688531 original size:22 final size:24
Alignment explanation
Indices: 688501--688556 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 24
688491 ATTATTTTAT
*
688501 TATAATATTAAAAATA-TAA-AAA
1 TATATTATTAAAAATATTAATAAA
*
688523 TATATTATTATAAATATTAATAAA
1 TATATTATTAAAAATATTAATAAA
688547 TATATT-TTAA
1 TATATTATTAA
688557 TATTTTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.48
23 6 0.21
24 9 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TATATTATTAAAAATATTAATAAA
Found at i:688564 original size:22 final size:23
Alignment explanation
Indices: 688512--688577 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 23
688502 ATAATATTAA
688512 AAATA-TAA-AAATATATTATTAT
1 AAATATTAATAAATATATT-TTAT
688534 AAATATTAATAAATATATTTTA-
1 AAATATTAATAAATATATTTTAT
* * *
688556 ATATTTTAATAATTAATATTTT
1 AAATATTAATAAAT-ATATTTT
688578 GATTAAAATG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
22 16 0.42
23 13 0.34
24 9 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATATTAATAAATATATTTTAT
Found at i:688998 original size:26 final size:26
Alignment explanation
Indices: 688911--688999 Score: 67
Period size: 25 Copynumber: 3.5 Consensus size: 26
688901 TTTAAATTAT
* * *
688911 ATTTACACTTATATATGAATCATATCA
1 ATTTAAAC-TATATATAAATTATATCA
* * **
688938 ATTTAAATTAT-TATAAATTTTAAAA
1 ATTTAAACTATATATAAATTATATCA
*
688963 ATATT--ACTATATATTAATTATATCA
1 AT-TTAAACTATATATAAATTATATCA
688988 ATTTAAACTATA
1 ATTTAAACTATA
689000 GTAAAAATAT
Statistics
Matches: 46, Mismatches: 12, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
24 6 0.13
25 23 0.50
26 11 0.24
27 6 0.13
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.45
Consensus pattern (26 bp):
ATTTAAACTATATATAAATTATATCA
Found at i:689022 original size:23 final size:24
Alignment explanation
Indices: 688996--689042 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
688986 CAATTTAAAC
*
688996 TATAGTAAAAATATA-ATTATAAT
1 TATAATAAAAATATATATTATAAT
* *
689019 TATAATGAAAATATATTTTATAAT
1 TATAATAAAAATATATATTATAAT
689043 AATTAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TATAATAAAAATATATATTATAAT
Found at i:689490 original size:20 final size:20
Alignment explanation
Indices: 689438--689491 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
689428 AATTTAATAT
*
689438 TATTATTTTTAAAATATTAAAA
1 TATTATTTTT--ATTATTAAAA
*
689460 TAGTT-TATTTATTATTAAAA
1 TA-TTATTTTTATTATTAAAA
689480 TATTATTTTTAT
1 TATTATTTTTAT
689492 AATTTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 2 0.07
20 17 0.63
22 6 0.22
23 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TATTATTTTTATTATTAAAA
Found at i:689499 original size:14 final size:14
Alignment explanation
Indices: 689467--689518 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
689457 AAATAGTTTA
689467 TTTATTATTAAAAT
1 TTTATTATTAAAAT
* * *
689481 ATTATTTTTATAAT
1 TTTATTATTAAAAT
*
689495 TTTATTAATAAAAAT
1 TTTATT-ATTAAAAT
*
689510 TTTAATATT
1 TTTATTATT
689519 GGTATATTTG
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTATTATTAAAAT
Found at i:689614 original size:23 final size:23
Alignment explanation
Indices: 689584--689631 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
689574 AATAGGTTTA
689584 TATTATATTTTAAAAATATTAAT
1 TATTATATTTTAAAAATATTAAT
* *
689607 TATTATATTTTAAATATATTTAT
1 TATTATATTTTAAAAATATTAAT
689630 TA
1 TA
689632 AAATATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TATTATATTTTAAAAATATTAAT
Found at i:689637 original size:23 final size:23
Alignment explanation
Indices: 689588--689656 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
689578 GGTTTATATT
* * **
689588 ATATTTTAAAAATATTAATTATT
1 ATATTTTAAATATATTTATTAAA
689611 ATATTTTAAATATATTTATTAAA
1 ATATTTTAAATATATTTATTAAA
*
689634 ATATTATTATAT-TATTATATTAA
1 ATATT-TTAAATATATT-TATTAA
689657 TATGAAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
23 28 0.72
24 11 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATATTTTAAATATATTTATTAAA
Found at i:689645 original size:8 final size:8
Alignment explanation
Indices: 689600--689655 Score: 55
Period size: 8 Copynumber: 7.2 Consensus size: 8
689590 ATTTTAAAAA
689600 TATTA-AT
1 TATTATAT
689607 TATTATAT
1 TATTATAT
*
689615 T-TTAAAT
1 TATTATAT
689622 ATATT-TAT
1 -TATTATAT
**
689630 TAAAATAT
1 TATTATAT
689638 TATTATAT
1 TATTATAT
689646 TATTATAT
1 TATTATAT
689654 TA
1 TA
689656 ATATGAAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
7 12 0.31
8 25 0.64
9 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TATTATAT
Found at i:689759 original size:54 final size:54
Alignment explanation
Indices: 689625--689762 Score: 158
Period size: 54 Copynumber: 2.5 Consensus size: 54
689615 TTTAAATATA
689625 TTTATTAA-AATATTATTATATTATTATATTAATATGAAATATAAAAATAATATAAT
1 TTTATTAATAAT-TTATTATA-TATTAT-TTAATATGAAATATAAAAATAATATAAT
* *
689681 TCATTATTAATAATTTAATA-ATATTATTT-CTATGAAAT-TAATAAATAATATAAAT
1 T--TTATTAATAATTTATTATATATTATTTAATATGAAATATAA-AAATAATAT-AAT
*
689736 TTTATTAATAATTTCTTATATATTATT
1 TTTATTAATAATTTATTATATATTATT
689763 AAAATAAAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
53 18 0.25
54 25 0.35
55 6 0.08
56 7 0.10
57 1 0.01
58 12 0.17
59 3 0.04
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (54 bp):
TTTATTAATAATTTATTATATATTATTTAATATGAAATATAAAAATAATATAAT
Found at i:689801 original size:23 final size:23
Alignment explanation
Indices: 689771--689821 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
689761 TTAAAATAAA
689771 AATATAATAT-ATTATATTATTAT
1 AATATAAT-TGATTATATTATTAT
*
689794 AATATAATTGATTATTTTATTAT
1 AATATAATTGATTATATTATTAT
689817 AATAT
1 AATAT
689822 TAAAAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
AATATAATTGATTATATTATTAT
Found at i:689807 original size:18 final size:19
Alignment explanation
Indices: 689773--689819 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
689763 AAAATAAAAA
*
689773 TATAATAT-ATTATATTAT
1 TATAATATAATTAGATTAT
689791 TATAATATAATT-GATTAT
1 TATAATATAATTAGATTAT
* *
689809 TTTATTATAAT
1 TATAATATAAT
689820 ATTAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TATAATATAATTAGATTAT
Found at i:689844 original size:22 final size:24
Alignment explanation
Indices: 689814--689869 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 24
689804 ATTATTTTAT
*
689814 TATAATATTAAAAATA-TAA-AAA
1 TATATTATTAAAAATATTAATAAA
*
689836 TATATTATTATAAATATTAATAAA
1 TATATTATTAAAAATATTAATAAA
689860 TATATT-TTAA
1 TATATTATTAA
689870 TATTTTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.48
23 6 0.21
24 9 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TATATTATTAAAAATATTAATAAA
Found at i:689877 original size:22 final size:23
Alignment explanation
Indices: 689825--689890 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 23
689815 ATAATATTAA
689825 AAATA-TAA-AAATATATTATTAT
1 AAATATTAATAAATATATT-TTAT
689847 AAATATTAATAAATATATTTTA-
1 AAATATTAATAAATATATTTTAT
* * *
689869 ATATTTTAATAATTAATATTTT
1 AAATATTAATAAAT-ATATTTT
689891 GATTAAAATG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
22 16 0.42
23 13 0.34
24 9 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATATTAATAAATATATTTTAT
Found at i:690311 original size:26 final size:26
Alignment explanation
Indices: 690236--690312 Score: 70
Period size: 25 Copynumber: 3.0 Consensus size: 26
690226 TTACACTTAC
*
690236 ATATGAATTATATCAATTTAAATTA-
1 ATATGAATTATATCAATTTAAACTAT
* * ** *
690261 ACATAAATT-TAAAAATATT-TACTAT
1 ATATGAATTATATCAAT-TTAAACTAT
690286 ATATGAATTATATCAATTTAAACTAT
1 ATATGAATTATATCAATTTAAACTAT
690312 A
1 A
690313 ATAAAAATAT
Statistics
Matches: 37, Mismatches: 11, Indels: 7
0.67 0.20 0.13
Matches are distributed among these distances:
24 8 0.22
25 18 0.49
26 11 0.30
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (26 bp):
ATATGAATTATATCAATTTAAACTAT
Found at i:690347 original size:18 final size:19
Alignment explanation
Indices: 690324--690364 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
690314 TAAAAATATA
690324 AATAAAAAATATA-ATTAT
1 AATAAAAAATATATATTAT
*
690342 AAT-AAAAATATATTTTAT
1 AATAAAAAATATATATTAT
690360 AATAA
1 AATAA
690365 TTCACTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 9 0.45
18 10 0.50
19 1 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AATAAAAAATATATATTAT
Found at i:690695 original size:37 final size:37
Alignment explanation
Indices: 690645--691008 Score: 404
Period size: 37 Copynumber: 10.1 Consensus size: 37
690635 AGTACAATTA
*
690645 TTGAAAAAATATATAATATATAGTTTTTGAAAACATT
1 TTGAAAATATATATAATATATAGTTTTTGAAAACATT
*
690682 TTGAGAACT-TATATAATATATAGTTTTTGAAAACATT
1 TTGA-AAATATATATAATATATAGTTTTTGAAAACATT
* *
690719 TTGAGAACACATATATAATATATAGTTTTTGAAAATATT
1 TTGA-AA-ATATATATAATATATAGTTTTTGAAAACATT
* * *
690758 TTGAAAATATATATAATATAGAATTTTTGAAAATATT
1 TTGAAAATATATATAATATATAGTTTTTGAAAACATT
*
690795 TTGAATATATATAT-ATAATATAGTTTTTGAAAAC---
1 TTGAAAATATATATAAT-ATATAGTTTTTGAAAACATT
*
690829 ------AT-T-TATAATATATAGTTTTCGAAAACATT
1 TTGAAAATATATATAATATATAGTTTTTGAAAACATT
*
690858 TTGAATATATATATATATAATATATAGTTTTTGAAAATATT
1 TTG-A-A-A-ATATATATAATATATAGTTTTTGAAAACATT
690899 TTGAAAATATATATAATATATAG-TTTTGAAAACATT
1 TTGAAAATATATATAATATATAGTTTTTGAAAACATT
* *
690935 ATTG-AAATGTATATAATATATAG-TTTTGAAAATATTT
1 -TTGAAAATATATATAATATATAGTTTTTGAAAACA-TT
690972 TTGAAAATATATATAATATATAG-TTTT-AAAACATT
1 TTGAAAATATATATAATATATAGTTTTTGAAAACATT
691007 TT
1 TT
691009 TTTCGAAAAT
Statistics
Matches: 284, Mismatches: 20, Indels: 48
0.81 0.06 0.14
Matches are distributed among these distances:
26 19 0.07
27 3 0.01
28 2 0.01
35 4 0.01
36 50 0.18
37 138 0.49
38 5 0.02
39 34 0.12
40 2 0.01
41 27 0.10
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.44
Consensus pattern (37 bp):
TTGAAAATATATATAATATATAGTTTTTGAAAACATT
Found at i:690836 original size:63 final size:67
Alignment explanation
Indices: 690756--690899 Score: 206
Period size: 63 Copynumber: 2.2 Consensus size: 67
690746 TTTGAAAATA
* * *
690756 TTTTGAAAATATATATAATATAGAATTTTTGAAAATATTTTG-A-ATATATATATAT-A-ATATA
1 TTTTGAAAATATTTATAATATAGAATTTTCGAAAACATTTTGAATATATATATATATAATATATA
690817 GT
66 GT
* * *
690819 TTTTGAAAACATTTATAATATATAGTTTTCGAAAACATTTTGAATATATATATATATAATATATA
1 TTTTGAAAATATTTATAATATAGAATTTTCGAAAACATTTTGAATATATATATATATAATATATA
690884 GT
66 GT
690886 TTTTGAAAATATTT
1 TTTTGAAAATATTT
690900 TGAAAATATA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
63 36 0.51
64 1 0.01
65 12 0.17
66 1 0.01
67 20 0.29
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.47
Consensus pattern (67 bp):
TTTTGAAAATATTTATAATATAGAATTTTCGAAAACATTTTGAATATATATATATATAATATATA
GT
Found at i:690857 original size:26 final size:26
Alignment explanation
Indices: 690812--690868 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
690802 TATATATATA
*
690812 ATATAGTTTTTGAAAACATTTAT-AAT
1 ATATAGTTTTCGAAAACATTT-TGAAT
690838 ATATAGTTTTCGAAAACATTTTGAAT
1 ATATAGTTTTCGAAAACATTTTGAAT
690864 ATATA
1 ATATA
690869 TATATATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 1 0.03
26 28 0.97
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (26 bp):
ATATAGTTTTCGAAAACATTTTGAAT
Found at i:690974 original size:73 final size:76
Alignment explanation
Indices: 690818--691008 Score: 277
Period size: 73 Copynumber: 2.5 Consensus size: 76
690808 TATAATATAG
* *
690818 TTTTTGAAAACATTTATAATATATAGTTTTCGAAAACATTTTGAATATATATATATATAATATAT
1 TTTTTGAAAATATATATAATATATAGTTTT-GAAAACATTTTG-A-ATATATATATATAATATAT
690883 AGTTTTTGAAAATA
63 AGTTTTTGAAAATA
*
690897 -TTTTGAAAATATATATAATATATAGTTTTGAAAACATTATTG-A-A-ATGTATATAATATATAG
1 TTTTTGAAAATATATATAATATATAGTTTTGAAAACATT-TTGAATATATATATATAATATATAG
690958 -TTTTGAAAATA
65 TTTTTGAAAATA
690969 TTTTTGAAAATATATATAATATATAGTTTT-AAAACATTTT
1 TTTTTGAAAATATATATAATATATAGTTTTGAAAACATTTT
691009 TTTCGAAAAT
Statistics
Matches: 107, Mismatches: 3, Indels: 12
0.88 0.02 0.10
Matches are distributed among these distances:
71 2 0.02
72 19 0.18
73 45 0.42
74 1 0.01
75 1 0.01
77 9 0.08
78 30 0.28
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.46
Consensus pattern (76 bp):
TTTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTGAATATATATATATAATATATAGT
TTTTGAAAATA
Found at i:691106 original size:24 final size:25
Alignment explanation
Indices: 691067--691120 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
691057 TATTATATAG
691067 TTTTTATTTACATTATATTTG-TTTC
1 TTTTTATTTACATTAT-TTTGTTTTC
*
691092 TTTTTATTTA-TTTATTTTGTTTTC
1 TTTTTATTTACATTATTTTGTTTTC
691116 TTTTT
1 TTTTT
691121 CAGACCCGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 4 0.15
24 13 0.48
25 10 0.37
ACGTcount: A:0.15, C:0.06, G:0.04, T:0.76
Consensus pattern (25 bp):
TTTTTATTTACATTATTTTGTTTTC
Found at i:697048 original size:23 final size:22
Alignment explanation
Indices: 696997--697077 Score: 108
Period size: 22 Copynumber: 3.6 Consensus size: 22
696987 GAACCTCCAA
* * *
696997 GGGGTATCGATTCCCCTACAGG
1 GGGGAATCGATTCCCCTTCAAG
*
697019 GGGGAATCGGTTCCCCTTCAAAG
1 GGGGAATCGATTCCCCTTC-AAG
697042 GGGGAATCGATTCCCCTTCAAG
1 GGGGAATCGATTCCCCTTCAAG
*
697064 GGGGTATCGATTCC
1 GGGGAATCGATTCC
697078 ATCTGTACCA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
22 32 0.62
23 20 0.38
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.23
Consensus pattern (22 bp):
GGGGAATCGATTCCCCTTCAAG
Found at i:708567 original size:39 final size:37
Alignment explanation
Indices: 708476--708744 Score: 333
Period size: 37 Copynumber: 6.9 Consensus size: 37
708466 CATAGTATAC
*
708476 TTTTGAAAATATATATAATATATAATTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
*
708513 TTTTGAGAACT-TATATAATATATAGTTTTTGAAAACA
1 TTTTGA-AAATATATATAATATATAGTTTTTGAAAACA
* *
708550 CTTTGAGAACATATATATATATATAATATATATAGTTTTTGAAAATA
1 -TTT-TG---A-A-A-ATATATAT-A-ATATATAGTTTTTGAAAACA
* * *
708597 TTTTAAAAATATATACAATATATAGTTTTTGAAAATA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
*
708634 TTTTGAAAATATATATAATATATAGTTTTTGAAAACG
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
*
708671 TTTTGAAAACATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
708708 TTTTGAAAAAATATATATAATATATAGTTTTTGAAAA
1 TTTTG--AAAATATATATAATATATAGTTTTTGAAAA
708745 TATATATAAT
Statistics
Matches: 203, Mismatches: 16, Indels: 24
0.84 0.07 0.10
Matches are distributed among these distances:
37 124 0.61
38 7 0.03
39 37 0.18
40 1 0.00
41 1 0.00
42 3 0.01
43 1 0.00
44 1 0.00
45 5 0.02
46 4 0.02
47 19 0.09
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
Found at i:708611 original size:47 final size:46
Alignment explanation
Indices: 708530--708620 Score: 119
Period size: 47 Copynumber: 2.0 Consensus size: 46
708520 AACTTATATA
* * *
708530 ATATATAGTTTTTGAAAACACTTTGAGAACATATATATATATATAAT
1 ATATATAGTTTTTGAAAACACTTTAAAAACATATACA-ATATATAAT
* * *
708577 ATATATAGTTTTTGAAAATATTTTAAAAATATATACAATATATA
1 ATATATAGTTTTTGAAAACACTTTAAAAACATATACAATATATA
708621 GTTTTTGAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
46 7 0.18
47 31 0.82
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (46 bp):
ATATATAGTTTTTGAAAACACTTTAAAAACATATACAATATATAAT
Found at i:708768 original size:24 final size:25
Alignment explanation
Indices: 708714--708768 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 25
708704 AACATTTTGA
708714 AAAAATATATATAATATATAGTTTTT
1 AAAAATATATATAATATATAG-TTTT
*
708740 GAAAATATATATAATATATAG-TTT
1 AAAAATATATATAATATATAGTTTT
708764 AAAAA
1 AAAAA
708769 CATTTTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 7 0.26
26 20 0.74
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (25 bp):
AAAAATATATATAATATATAGTTTT
Found at i:708865 original size:18 final size:18
Alignment explanation
Indices: 708844--708881 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
708834 TTTATTTACG
708844 TTATATTTGTTT-TTTTAT
1 TTAT-TTTGTTTCTTTTAT
708862 TTATTTTGTTTCTTTTAT
1 TTATTTTGTTTCTTTTAT
708880 TT
1 TT
708882 TTGTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.79
Consensus pattern (18 bp):
TTATTTTGTTTCTTTTAT
Found at i:711902 original size:15 final size:16
Alignment explanation
Indices: 711876--711905 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
711866 GGGAAAAGAA
711876 ATGGGTAGGGGAGGGG
1 ATGGGTAGGGGAGGGG
711892 ATGGG-AGGGGAGGG
1 ATGGGTAGGGGAGGG
711906 TAGCGTTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.20, C:0.00, G:0.70, T:0.10
Consensus pattern (16 bp):
ATGGGTAGGGGAGGGG
Found at i:713560 original size:109 final size:107
Alignment explanation
Indices: 713423--713674 Score: 281
Period size: 107 Copynumber: 2.3 Consensus size: 107
713413 CGTTATTTCT
* ** * * ** * * *
713423 TTTTAGTTTTCAATTAATAGTTTATCCTAGAATTAAGTCATATCTCTTCTTTTTTTTTTTGTAAT
1 TTTTAGTTTTAAAACAATTGTTTATCCTAGAATTAAGTCATATCTCTGC---TACTTTGTGCAAC
* * * * *
713488 TTATTGGCAATCCGACTGGATCGTGTATATTT-TGTTGAAATTTG
63 TTAGTAGCAATCAGAATGGATCGGGTATATTTCTGTTGAAATTTG
* *
713532 TTTTAGTTTTGAAACAATTGTTTATCCTAGAATTAAGTCATATCTCTGCTACTTTGTGCAACTTC
1 TTTTAGTTTTAAAACAATTGTTTATCCTAGAATTAAGTCATATCTCTGCTACTTTGTGCAACTTA
* *
713597 GTAGCAATCAGAATGGATCGGGTCTTTTTCTGTTGAAATTTG
66 GTAGCAATCAGAATGGATCGGGTATATTTCTGTTGAAATTTG
* *
713639 TTTTAGTTTTAAAACAATTGTTTGTCCTTGAATTAA
1 TTTTAGTTTTAAAACAATTGTTTATCCTAGAATTAA
713675 ATAACATTTC
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
106 32 0.26
107 45 0.37
109 44 0.36
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.47
Consensus pattern (107 bp):
TTTTAGTTTTAAAACAATTGTTTATCCTAGAATTAAGTCATATCTCTGCTACTTTGTGCAACTTA
GTAGCAATCAGAATGGATCGGGTATATTTCTGTTGAAATTTG
Found at i:713723 original size:107 final size:106
Alignment explanation
Indices: 713494--713695 Score: 269
Period size: 107 Copynumber: 1.9 Consensus size: 106
713484 TAATTTATTG
* *
713494 GCAATCCGACTGGATCGTGTATATTTTGTTGAAATTTGTTTTAGTTTTGAAACAATTGTTTATCC
1 GCAATCCGACTGGATCGGGTATATTTTGTTGAAATTTGTTTTAGTTTTAAAACAATTGTTTATCC
* * * *
713559 TAGAATTAAGTCATATCTCTGCTACTTTGTGCAACTTCGTA
66 TAGAATTAAATAACATCTCTACTACTTTGTGCAACTTCGTA
* * * * *
713600 GCAATCAGAATGGATCGGGTCTTTTTCTGTTGAAATTTGTTTTAGTTTTAAAACAATTGTTTGTC
1 GCAATCCGACTGGATCGGGTATATTT-TGTTGAAATTTGTTTTAGTTTTAAAACAATTGTTTATC
* * *
713665 CTTGAATTAAATAACATTTCTACTATTTTGT
65 CTAGAATTAAATAACATCTCTACTACTTTGT
713696 TTAATTTCTT
Statistics
Matches: 81, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
106 21 0.26
107 60 0.74
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.44
Consensus pattern (106 bp):
GCAATCCGACTGGATCGGGTATATTTTGTTGAAATTTGTTTTAGTTTTAAAACAATTGTTTATCC
TAGAATTAAATAACATCTCTACTACTTTGTGCAACTTCGTA
Found at i:715614 original size:15 final size:15
Alignment explanation
Indices: 715581--715613 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
715571 TGGTGGAAAG
*
715581 AAAATTAGAAAGAAC
1 AAAAGTAGAAAGAAC
715596 AAAAGTAGAAAG-AC
1 AAAAGTAGAAAGAAC
715610 AAAA
1 AAAA
715614 AAAGTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.70, C:0.06, G:0.15, T:0.09
Consensus pattern (15 bp):
AAAAGTAGAAAGAAC
Found at i:716681 original size:22 final size:22
Alignment explanation
Indices: 716656--716703 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
716646 ATAAAAAAAT
* * *
716656 GAAAGAGCATAAAATTCATTTA
1 GAAAGAGAATAAAATTAAGTTA
*
716678 GAAATAGAATAAAATTAAGTTA
1 GAAAGAGAATAAAATTAAGTTA
716700 GAAA
1 GAAA
716704 TGATATAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.56, C:0.04, G:0.15, T:0.25
Consensus pattern (22 bp):
GAAAGAGAATAAAATTAAGTTA
Found at i:719412 original size:22 final size:19
Alignment explanation
Indices: 719361--719397 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
719351 ATTCAAACAC
719361 TTTAGATTTTATTATTTTA
1 TTTAGATTTTATTATTTTA
719380 TTTAGATTTTATTATTTT
1 TTTAGATTTTATTATTTT
719398 TTATTAGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTAGATTTTATTATTTTA
Found at i:721276 original size:22 final size:21
Alignment explanation
Indices: 721217--721295 Score: 65
Period size: 22 Copynumber: 3.8 Consensus size: 21
721207 GCAACTCATT
* *
721217 TTTATTTATTTCGTTTATT--
1 TTTATTTATTTTGATTATTAA
* *
721236 TTTATTTAATTTT-AGTATTTGA
1 TTTATTT-ATTTTGATTA-TTAA
721258 TTTATTTATTTTGATTATTAA
1 TTTATTTATTTTGATTATTAA
*
721279 TTTATTTTTCTTTGATT
1 TTTATTTAT-TTTGATT
721296 TTTTAAGGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
19 9 0.19
20 6 0.12
21 16 0.33
22 17 0.35
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.70
Consensus pattern (21 bp):
TTTATTTATTTTGATTATTAA
Found at i:722729 original size:21 final size:21
Alignment explanation
Indices: 722685--722730 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
722675 GATTTCTGGG
* * *
722685 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
722706 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
722727 CAAG
1 CAAG
722731 CGAACCAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:722802 original size:23 final size:22
Alignment explanation
Indices: 722754--722802 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
722744 ACAGAATGTC
*
722754 AAGG-GGGAACTGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
722775 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATACCCCC-A
722798 AAGGA
1 AAGGA
722803 AAAATGTGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 3 0.14
22 14 0.64
23 5 0.23
ACGTcount: A:0.33, C:0.29, G:0.29, T:0.10
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:723747 original size:31 final size:31
Alignment explanation
Indices: 723709--723833 Score: 207
Period size: 31 Copynumber: 4.0 Consensus size: 31
723699 AGGGTCGAGG
723709 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
723740 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
723771 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
723802 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
723833 G
1 G
723834 GTTCTTTGGG
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 89 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:727009 original size:21 final size:21
Alignment explanation
Indices: 726965--727010 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
726955 GATTTCTGGG
* * *
726965 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
726986 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
727007 CAAG
1 CAAG
727011 CGAACCAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:727083 original size:24 final size:22
Alignment explanation
Indices: 727034--727075 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
727024 ACAGAATGTC
727034 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
727055 CAGGAGGGAACCGATTCCCCC
1 AAGGAGGGAACCGATACCCCC
727076 CTAAAGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.29, C:0.36, G:0.29, T:0.07
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:728030 original size:31 final size:31
Alignment explanation
Indices: 727992--728147 Score: 260
Period size: 31 Copynumber: 5.0 Consensus size: 31
727982 AGGGTCGAGG
727992 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
728023 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
728054 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
728085 GTTTACCTATGTTCTTCGGGACATATGGACC
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
728116 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
728147 G
1 G
728148 GTCCTTCGGG
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 118 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:730006 original size:19 final size:19
Alignment explanation
Indices: 729979--730015 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
729969 ATTCAAACAC
729979 TTTAGATTTTATTATTTTA
1 TTTAGATTTTATTATTTTA
*
729998 TTTATATTTTATTATTTT
1 TTTAGATTTTATTATTTT
730016 TATTAGGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (19 bp):
TTTAGATTTTATTATTTTA
Found at i:734598 original size:3 final size:3
Alignment explanation
Indices: 734592--734658 Score: 84
Period size: 3 Copynumber: 22.3 Consensus size: 3
734582 TTATTTTTTT
*
734592 ATA ATA ATA ATA ATA AT- ATA TATA ATA AT- ATA TATA ATA ATT ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA ATA ATA
*
734637 ATT ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
734659 ATAAATAAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 4 0.07
3 46 0.82
4 6 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:735052 original size:113 final size:113
Alignment explanation
Indices: 734920--735576 Score: 818
Period size: 113 Copynumber: 5.8 Consensus size: 113
734910 GCAAAAGGTC
* *
734920 GAACAAGCTCTTCTCATTATGAACTTTTTCTTCTTTCTTCAGATGAGTTCTTCTCATGATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTTTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACT
** * * * *
734985 CTCTCTGGAAAAGTTGATCCATCGAGTGATAAATTCGAGCGAAAAGTT
66 CTAACTGGAAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTT
* *
735033 GAACAAGTTCTTCTTATTATGAACTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGA
1 GAACAAGTTCTTCTCATTATGAACTTTTTCTTCTTTCTTCAGAT---GAGTTCTTCTCATTATGA
* * * *
735098 ACTCTACCTGGCAATGTTGATCCATCAAATGATG-A---AA---AAAGGTT
63 ACTCTAACTGGAAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTT
* * *
735142 GAATAAATTCTTCTCATTATGAA-TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
1 GAACAAGTTCTTCTCATTATGAACTTT-TTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAAC
* ** * * * * **
735206 TTTTTCTGGAAAAGCTGATCCATC-AAGAGATGGATTTGAGC-AAAAGGTT
65 TCTAACTGGAAATGTTGATCCATCGAA-TGATGAATTCAAGCGAAAA-GTT
* *
735255 GAACAAATTCTTCTCATTATGAA-TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
1 GAACAAGTTCTTCTCATTATGAACTTT-TTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAAC
* *
735319 TCGAACTGGTAATGTTGAAT-CATCGAATGATGAATTCAAGCGAAAAGTT
65 TCTAACTGGAAATGTTG-ATCCATCGAATGATGAATTCAAGCGAAAAGTT
735368 GAACAAGTTCTTCTCATTATGAACTTTTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTTTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACT
* *
735433 CGAACTGGTAATGTTGAAT-CATCGAATGATGAATTCAAGCGAAAAGTT
66 CTAACTGGAAATGTTG-ATCCATCGAATGATGAATTCAAGCGAAAAGTT
*
735481 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTTTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACT
* * *
735546 CGAACTGGTAATGCTGATCCATCGAATGATG
66 CTAACTGGAAATGTTGATCCATCGAATGATG
735577 GATTTGAATC
Statistics
Matches: 484, Mismatches: 43, Indels: 34
0.86 0.08 0.06
Matches are distributed among these distances:
105 2 0.00
106 42 0.09
107 1 0.00
108 2 0.00
109 42 0.09
110 1 0.00
112 6 0.01
113 332 0.69
114 11 0.02
115 1 0.00
116 44 0.09
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (113 bp):
GAACAAGTTCTTCTCATTATGAACTTTTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACT
CTAACTGGAAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTT
Found at i:736010 original size:22 final size:22
Alignment explanation
Indices: 735985--736039 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
735975 GATAAAGCTT
*
735985 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
736007 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
736029 TCATCTTTGAA
1 TCATCTTTGAA
736040 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:744299 original size:14 final size:14
Alignment explanation
Indices: 744265--744319 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
744255 TTGTGCAATA
* *
744265 CAAATGCAAAGATG
1 CAAATGTAAATATG
744279 CCAAATGTAAATATG
1 -CAAATGTAAATATG
*
744294 CAAATGTAAAAATG
1 CAAATGTAAATATG
*
744308 TAAATGTAAATA
1 CAAATGTAAATA
744320 CAAACGTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
14 23 0.66
15 12 0.34
ACGTcount: A:0.53, C:0.09, G:0.15, T:0.24
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:744514 original size:43 final size:43
Alignment explanation
Indices: 744431--744516 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
744421 CCGTGCATCA
* *
744431 AACAAAACTTTACATATAGGGGACATCTTTCAGTCCTAACTTC
1 AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
* * *
744474 AACAAAACTTTACATATAGGGGATAACTTTCCCTCTTAACTTC
1 AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
744517 TCTAAAGCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.31
Consensus pattern (43 bp):
AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
Found at i:747884 original size:3 final size:3
Alignment explanation
Indices: 747878--747941 Score: 78
Period size: 3 Copynumber: 21.3 Consensus size: 3
747868 TTATTTTTTT
* *
747878 ATA ATA ATA ATA AT- ATA TATA ATA AT- ATA TATA ATA ATT ATA ATT
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA
747923 ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
747942 ATAAATAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 4 0.08
3 43 0.81
4 6 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:747901 original size:12 final size:12
Alignment explanation
Indices: 747884--747949 Score: 75
Period size: 12 Copynumber: 5.6 Consensus size: 12
747874 TTTTATAATA
747884 ATAATAATATAT
1 ATAATAATATAT
747896 ATAATAATATAT
1 ATAATAATATAT
747908 ATAATAAT-TAT
1 ATAATAATATAT
*
747919 AATTATAATA-AT
1 -ATAATAATATAT
*
747931 AATAATAATAAAT
1 -ATAATAATATAT
747944 A-AATAA
1 ATAATAA
747950 ATAAAATGGG
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
11 8 0.16
12 39 0.80
13 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATAATAATATAT
Found at i:749000 original size:15 final size:16
Alignment explanation
Indices: 748974--749006 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
748964 TTATAAAAAC
748974 TAAAATTTAAAAGTTA
1 TAAAATTTAAAAGTTA
*
748990 TAAAA-TTAAAATTTA
1 TAAAATTTAAAAGTTA
749005 TA
1 TA
749007 TATAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
TAAAATTTAAAAGTTA
Found at i:750340 original size:42 final size:42
Alignment explanation
Indices: 750294--750387 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
750284 TTGATCGGTG
* * * *
750294 ATATACTAATTATTCCATTATTAAACTAAACATTGATTTGTA
1 ATATATTAATTAGTACATTATTAAACTAAACATTGATTTATA
* * *
750336 ATATATTAATTAGTATATTCTTGAACTAAACATTGATTTATA
1 ATATATTAATTAGTACATTATTAAACTAAACATTGATTTATA
750378 ATATATTAAT
1 ATATATTAAT
750388 CACCAAATGC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (42 bp):
ATATATTAATTAGTACATTATTAAACTAAACATTGATTTATA
Found at i:765882 original size:2 final size:2
Alignment explanation
Indices: 765875--765921 Score: 85
Period size: 2 Copynumber: 23.0 Consensus size: 2
765865 AATAATTTTA
765875 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
765917 GAT AT
1 -AT AT
765922 GAGAAGCACC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 42 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:772302 original size:26 final size:27
Alignment explanation
Indices: 772265--772333 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
772255 TCTAAGTAAT
*
772265 ATTTAGGTCATTTTAGAA-CTCGAGTG-A
1 ATTTA-GTCATTTTA-AAGCTCGAGAGTA
772292 ATTTAGTCATTTTAAAGCTCGAGAGTA
1 ATTTAGTCATTTTAAAGCTCGAGAGTA
* *
772319 TTTTAATCATTTTAA
1 ATTTAGTCATTTTAA
772334 TCAATTTAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 2 0.05
26 16 0.43
27 19 0.51
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (27 bp):
ATTTAGTCATTTTAAAGCTCGAGAGTA
Found at i:772868 original size:2 final size:2
Alignment explanation
Indices: 772863--772903 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
772853 TTTTGTGCCC
772863 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
772904 TAATTAGGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:775847 original size:83 final size:83
Alignment explanation
Indices: 775675--775863 Score: 213
Period size: 83 Copynumber: 2.3 Consensus size: 83
775665 TAGGGAATGT
* *
775675 GTTTTTCCTTTATTATTCATAGAATATCTTGATTATAATAGTGATCCATCCATCCAAAATGAAAG
1 GTTTTTCCATTATTATTCAGAGAATATCTTGATTATAATAGTGATCCATCCATCCAAAATGAAAG
* * * *
775740 GCACGTTCCAGGGGAAGC
66 ACACATTCCAGGGAAAAC
* * * * *
775758 GTTTTTCCATTATTATTTAGAGAATCT-TTGGATTATAATAGTGATTCATCCAATTCTAAATGAA
1 GTTTTTCCATTATTATTCAGAGAATATCTT-GATTATAATAGTGATCCATCC-ATCCAAAATGAA
* *
775822 AGACGCATTTC-GGGAAAAAC
64 AGACACATTCCAGGG-AAAAC
775842 G-TTTTCCATTATTATTCAGAGA
1 GTTTTTCCATTATTATTCAGAGA
775864 GTCTATGCCA
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
82 2 0.02
83 66 0.74
84 21 0.24
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (83 bp):
GTTTTTCCATTATTATTCAGAGAATATCTTGATTATAATAGTGATCCATCCATCCAAAATGAAAG
ACACATTCCAGGGAAAAC
Found at i:775891 original size:83 final size:82
Alignment explanation
Indices: 775760--776115 Score: 319
Period size: 83 Copynumber: 4.3 Consensus size: 82
775750 GGGGAAGCGT
* * * * * *
775760 TTTTCCATTATTATTTAGAGAATCTTTG-GATTATAATAGTGATT-CATCCAATTCTAAATGAAA
1 TTTTCCATTATTATTTAGAGAATCTCTGCCA-TGTCATAGTG-TTCCATCC-ATCCGAAATGAAA
*
775823 GACGCATTTCGGGAAAAACG
63 GACGCATTTCGGGAAAAACA
* * * * *
775843 TTTTCCATTATTATTCAGAGAGTCTATGCCATTTCATATTGTTCCATCCCATCCGAAATGAAAAG
1 TTTTCCATTATTATTTAGAGAATCTCTGCCATGTCATAGTGTTCCAT-CCATCCGAAATG-AAAG
** * * **
775908 A-GTGTTTTGGGGAAAGTA
64 ACGCATTTCGGGAAAAACA
* * * * ** *
775926 TTTTCTATTATTATTTAGAGAATATCTTCCATGTC--AGTGTTCAATCCTATCTTAAATGAAATA
1 TTTTCCATTATTATTTAGAGAATCTCTGCCATGTCATAGTGTTCCATCC-ATCCGAAATGAAAGA
*
775989 CGCATTT-GGGGAAAACA
65 CGCATTTCGGGAAAAACA
* *
776006 TTTTCCATTATTATTTAGAGAATCTCTGCCATGTCAGAGTGTTCCATACCATCCGAAATGAAAGG
1 TTTTCCATTATTATTTAGAGAATCTCTGCCATGTCATAGTGTTCCAT-CCATCCGAAATGAAAGA
* *
776071 CGCGTTTCGGGAAAAGCA
65 CGCATTTCGGGAAAAACA
* *
776089 TTTTTCATTATTATTCAGAGAATCTCT
1 TTTTCCATTATTATTTAGAGAATCTCT
776116 ATAACTTCAC
Statistics
Matches: 218, Mismatches: 45, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
80 46 0.21
81 20 0.09
82 28 0.13
83 116 0.53
84 8 0.04
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (82 bp):
TTTTCCATTATTATTTAGAGAATCTCTGCCATGTCATAGTGTTCCATCCATCCGAAATGAAAGAC
GCATTTCGGGAAAAACA
Found at i:776051 original size:163 final size:164
Alignment explanation
Indices: 775814--776111 Score: 420
Period size: 163 Copynumber: 1.8 Consensus size: 164
775804 CATCCAATTC
* * *
775814 TAAATGAAAGACGCATTTCGGGAAAAACGTTTTCCATTATTATTCAGAGAGTCTATGCCATTTCA
1 TAAATGAAAGACGCATTTCGGGAAAAACATTTTCCATTATTATTCAGAGAATCTATGCCATGTCA
* * * * * * * *
775879 TATTGTTCCATCCCATCCGAAATGAAAAGAGTGTTTTGGGGAAAGTA-TTTTCTATTATTATTTA
66 GAGTGTTCCATACCATCCGAAATGAAAAGAGCGTTTCGGGAAAAGCATTTTTC-ATTATTATTCA
775943 GAGAATATCTTCCATGTCAGTGTTCAATCCTATCT
130 GAGAATATCTTCCATGTCAGTGTTCAATCCTATCT
* * * *
775978 TAAATGAAATACGCATTT-GGGGAAAACATTTTCCATTATTATTTAGAGAATCTCTGCCATGTCA
1 TAAATGAAAGACGCATTTCGGGAAAAACATTTTCCATTATTATTCAGAGAATCTATGCCATGTCA
* *
776042 GAGTGTTCCATACCATCCGAAATGAAAGGCGCGTTTCGGGAAAAGCATTTTTCATTATTATTCAG
66 GAGTGTTCCATACCATCCGAAATGAAAAGAGCGTTTCGGGAAAAGCATTTTTCATTATTATTCAG
776107 AGAAT
131 AGAAT
776112 CTCTATAACT
Statistics
Matches: 116, Mismatches: 17, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
163 94 0.81
164 22 0.19
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (164 bp):
TAAATGAAAGACGCATTTCGGGAAAAACATTTTCCATTATTATTCAGAGAATCTATGCCATGTCA
GAGTGTTCCATACCATCCGAAATGAAAAGAGCGTTTCGGGAAAAGCATTTTTCATTATTATTCAG
AGAATATCTTCCATGTCAGTGTTCAATCCTATCT
Found at i:780080 original size:30 final size:30
Alignment explanation
Indices: 780035--780110 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
780025 TCAATTCTTT
* *
780035 TACAATATCTTTTTATACTCAATAAAAT-CA
1 TACAA-ATTTTTTTATACTCAAGAAAATACA
* *
780065 TACACAATTTTTTTATGCTCAAGAAAATACT
1 TACA-AATTTTTTTATACTCAAGAAAATACA
780096 TACAAATTTTCTTTA
1 TACAAATTTT-TTTA
780111 AAAAGATAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
30 29 0.74
31 10 0.26
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (30 bp):
TACAAATTTTTTTATACTCAAGAAAATACA
Found at i:781491 original size:3 final size:3
Alignment explanation
Indices: 781483--781512 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
781473 AGCAACTGTG
781483 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
781513 AAATTATTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:785799 original size:14 final size:16
Alignment explanation
Indices: 785774--785805 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
785764 TTCACCTATC
785774 ATTTATAAAACAA-AA
1 ATTTATAAAACAAGAA
785789 ATTTA-AAAACAAGAA
1 ATTTATAAAACAAGAA
785804 AT
1 AT
785806 ATGAATGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (16 bp):
ATTTATAAAACAAGAA
Found at i:787163 original size:23 final size:22
Alignment explanation
Indices: 787133--787180 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
787123 AGTACTCAAC
787133 ATATAATTATAATTTAGTTGAAA
1 ATATAATTATAATTTA-TTGAAA
* *
787156 ATATAATTGTAATTTATTTAAA
1 ATATAATTATAATTTATTGAAA
787178 ATA
1 ATA
787181 AATATTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (22 bp):
ATATAATTATAATTTATTGAAA
Found at i:788173 original size:21 final size:20
Alignment explanation
Indices: 788135--788190 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
788125 CATAATGAAT
*
788135 GGTCAATTCGAACAATTAAAA
1 GGTCAATTTGAA-AATTAAAA
*
788156 GGTCAATTTGAAATATTAAAT
1 GGTCAATTTGAAA-ATTAAAA
**
788177 GACCAATTTGAAAA
1 GGTCAATTTGAAAA
788191 ATTAGTGAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 2 0.07
21 28 0.93
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (20 bp):
GGTCAATTTGAAAATTAAAA
Found at i:790493 original size:23 final size:22
Alignment explanation
Indices: 790462--790530 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
790452 GGTATTCATG
*
790462 CACTGATATTGATGTATCGGTA
1 CACTCATATTGATGTATCGGTA
* * *
790484 CGCTCAATATGGATGTATAGGTA
1 CACTC-ATATTGATGTATCGGTA
*
790507 CACTCATATTGGTTGTATCGGTA
1 CACTCATATT-GATGTATCGGTA
790530 C
1 C
790531 CTATGTCATA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
22 7 0.19
23 30 0.81
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (22 bp):
CACTCATATTGATGTATCGGTA
Found at i:792425 original size:125 final size:125
Alignment explanation
Indices: 792202--792463 Score: 337
Period size: 125 Copynumber: 2.1 Consensus size: 125
792192 CATTTGAACT
* * * *
792202 ATATCGGTACACTGTATGTACCAATACACACAAAAGTCACTATAATTACAATAGATTCATAGTGT
1 ATATCGGTACACTATAAGTACCAATACACACAAAACTCACTATAATTACAATAAATTCATAGTGT
** * * * * *
792267 ATCAGTACATGGTTTGTATCGATACCATCGAAACACATTATAATTCCACGTAATTTATTA
66 ATCAGTACATGGAATATATCGAAACCATCGAAACACACTACAATTCCACATAATTTATTA
***
792327 ATATCGGTACACTATAAGTATTGATACACACAAAACTCACTATAATTACAATAAATTCATAGTGT
1 ATATCGGTACACTATAAGTACCAATACACACAAAACTCACTATAATTACAATAAATTCATAGTGT
* * * *
792392 ATC-GATATATGGAATATATCGAAACCGTTGAAACACACTGCAATTCCACATAATTTATTA
66 ATCAG-TACATGGAATATATCGAAACCATCGAAACACACTACAATTCCACATAATTTATTA
*
792452 GTATCGGTACAC
1 ATATCGGTACAC
792464 AGTGCGTATC
Statistics
Matches: 117, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
124 1 0.01
125 116 0.99
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (125 bp):
ATATCGGTACACTATAAGTACCAATACACACAAAACTCACTATAATTACAATAAATTCATAGTGT
ATCAGTACATGGAATATATCGAAACCATCGAAACACACTACAATTCCACATAATTTATTA
Found at i:794498 original size:23 final size:22
Alignment explanation
Indices: 794462--794505 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
794452 TTAATATTGT
794462 ATTTTAAATAAATTACAATTAG
1 ATTTTAAATAAATTACAATTAG
* *
794484 ATTTTCAACTAAATTATAATTA
1 ATTTT-AAATAAATTACAATTA
794506 TACGTTGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTTTAAATAAATTACAATTAG
Found at i:797516 original size:22 final size:22
Alignment explanation
Indices: 797482--797535 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
797472 AGAAGTTAGT
* * *
797482 AAAA-TGATATAAAGTAAAGAC
1 AAAATTGAAATAAAATAAAAAC
797503 AAAATTGAAATAAAATAAAAAC
1 AAAATTGAAATAAAATAAAAAC
797525 AAGAATT-AAAT
1 AA-AATTGAAAT
797536 TGCAGTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.14
22 20 0.71
23 4 0.14
ACGTcount: A:0.67, C:0.04, G:0.09, T:0.20
Consensus pattern (22 bp):
AAAATTGAAATAAAATAAAAAC
Found at i:798955 original size:33 final size:33
Alignment explanation
Indices: 798908--798971 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
798898 CGAGCAGACA
* * *
798908 AGCCTAAACTTTCTTGATTCACATGATTACTTG
1 AGCCTAAACCTTCTTGATCCACATGAATACTTG
798941 AGCCTAAACCTTCTTGATCCACATGAATACT
1 AGCCTAAACCTTCTTGATCCACATGAATACT
798972 AAGAGTAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (33 bp):
AGCCTAAACCTTCTTGATCCACATGAATACTTG
Found at i:813781 original size:158 final size:157
Alignment explanation
Indices: 813484--813801 Score: 602
Period size: 158 Copynumber: 2.0 Consensus size: 157
813474 TAATCTACTA
813484 AGTTTCACCGCTCGACGGAGTTTGCTGAAAGTGCTCCAGCTATCTCTAGTTAAAGAACCTAATAG
1 AGTTTCACCGCTCGACGGAGTTTGCTGAAAGTGCTCCAGCTATCTCTAGTTAAAGAACCTAATAG
813549 AATAGAATGCCACGACATCTCTCTCAGTCTCAAGTTTGGCAGTCAACGCTATTGATAAAAACTAC
66 AATAGAATGCCACGACATCTCTCTCAGTCTCAAGTTTGGCAGTCAACGCTATTGATAAAAACTAC
813614 CCCTCTTAGTCATTGAAATCCTATCTT
131 CCCTCTTAGTCATTGAAATCCTATCTT
813641 AGTTTCACTCGCTCGACGGAGTTTGCTGAAAGTGCTCCAGCTATCTCTAGTTAAAGAACCTAATA
1 AGTTTCAC-CGCTCGACGGAGTTTGCTGAAAGTGCTCCAGCTATCTCTAGTTAAAGAACCTAATA
813706 GAATAGAATGCCACGACAT-TCCTCTCAGTCTCAAGTTTGGCAGTCAACGCTATTGATAAAAACT
65 GAATAGAATGCCACGACATCT-CTCTCAGTCTCAAGTTTGGCAGTCAACGCTATTGATAAAAACT
*
813770 ACCCCTTTTAGTCATTGAAATCCTATCTT
129 ACCCCTCTTAGTCATTGAAATCCTATCTT
813799 AGT
1 AGT
813802 CTCTCTTAAG
Statistics
Matches: 158, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
157 9 0.06
158 149 0.94
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (157 bp):
AGTTTCACCGCTCGACGGAGTTTGCTGAAAGTGCTCCAGCTATCTCTAGTTAAAGAACCTAATAG
AATAGAATGCCACGACATCTCTCTCAGTCTCAAGTTTGGCAGTCAACGCTATTGATAAAAACTAC
CCCTCTTAGTCATTGAAATCCTATCTT
Found at i:816499 original size:26 final size:26
Alignment explanation
Indices: 816426--816487 Score: 115
Period size: 26 Copynumber: 2.3 Consensus size: 26
816416 CACCATGAAT
816426 CGCCTTAGCTCGCTAGCTCCTCTTGGA
1 CGCC-TAGCTCGCTAGCTCCTCTTGGA
816453 CGCCTAGCTCGCTAGCTCCTCTTGGA
1 CGCCTAGCTCGCTAGCTCCTCTTGGA
816479 CGCCTAGCT
1 CGCCTAGCT
816488 TGTCACTCCC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 31 0.89
27 4 0.11
ACGTcount: A:0.11, C:0.39, G:0.23, T:0.27
Consensus pattern (26 bp):
CGCCTAGCTCGCTAGCTCCTCTTGGA
Found at i:828468 original size:21 final size:21
Alignment explanation
Indices: 828443--828486 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
828433 ATATTGACAA
*
828443 CATTATTTCTTTTTCGGGATT
1 CATTATTTCTTTTTCGAGATT
828464 CATTATTTCTTTTTCGAGATT
1 CATTATTTCTTTTTCGAGATT
828485 CA
1 CA
828487 AGCATGGTCT
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:0.18, C:0.16, G:0.11, T:0.55
Consensus pattern (21 bp):
CATTATTTCTTTTTCGAGATT
Found at i:837900 original size:19 final size:18
Alignment explanation
Indices: 837872--837909 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
837862 TCAAAGAACA
*
837872 TTTTTGAAAAATTGTTTG
1 TTTTTGAAAAATTGATTG
837890 TTTTTGAAAAAATTGATTG
1 TTTTTG-AAAAATTGATTG
837909 T
1 T
837910 AAAATATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.53
Consensus pattern (18 bp):
TTTTTGAAAAATTGATTG
Found at i:838329 original size:44 final size:44
Alignment explanation
Indices: 838274--838368 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 44
838264 AGTGTGCATT
* * *
838274 GATGCACATTC-AA-GGAGTGCATCGGTGCA-TCTTCATGATGTATC
1 GATGCATATTCAAAGGGA-TGCATCGATGCACTATTCA-G-TGTATC
*
838318 GATGCATATTCAAAGGGATGCATCGATGCACTATTTAGTGTATC
1 GATGCATATTCAAAGGGATGCATCGATGCACTATTCAGTGTATC
838362 GATGCAT
1 GATGCAT
838369 TATGCACAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
44 23 0.52
45 14 0.32
46 7 0.16
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (44 bp):
GATGCATATTCAAAGGGATGCATCGATGCACTATTCAGTGTATC
Found at i:843412 original size:11 final size:11
Alignment explanation
Indices: 843390--843425 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
843380 GTTTGATGCT
843390 TTCTCT-TTGA
1 TTCTCTCTTGA
843400 TTCTCTCTTGA
1 TTCTCTCTTGA
843411 TTCTCTCTTGA
1 TTCTCTCTTGA
843422 TTCT
1 TTCT
843426 TATTTCTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.08, C:0.25, G:0.08, T:0.58
Consensus pattern (11 bp):
TTCTCTCTTGA
Found at i:845417 original size:43 final size:43
Alignment explanation
Indices: 845245--845421 Score: 142
Period size: 43 Copynumber: 4.1 Consensus size: 43
845235 CACACAAAAT
* * * *
845245 GCCGCAATAGGTAG-CGATATATAGCGGTGTTTGTTC-AACAAAC
1 GCCGCAATAGGT-GTTGATATTTAGCGGCGTTT-TTCTCACAAAC
* * * *
845288 GCCGCAATAGGTGTCGATATTTAGCGGCGTTTGTCTTATAAAC
1 GCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCTCACAAAC
* * * ** ** * * * *
845331 GCCGTAATAGGTATTAAGGTTTAGCAACATTTTCCCCAAAAAC
1 GCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCTCACAAAC
*
845374 GCCGCAATAGGTGTTGATAATTAGCGGCGTTTTTCTCACAAAC
1 GCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCTCACAAAC
845417 GCCGC
1 GCCGC
845422 TATATACCAT
Statistics
Matches: 101, Mismatches: 31, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
42 3 0.03
43 98 0.97
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (43 bp):
GCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCTCACAAAC
Found at i:845698 original size:44 final size:43
Alignment explanation
Indices: 845573--845723 Score: 157
Period size: 44 Copynumber: 3.5 Consensus size: 43
845563 TTCGCAGCTT
*
845573 TTTTTA-GATACAAACGCCGCTAAAGATCTGGTATATAGCAGCG
1 TTTTTAGGATACAAACGCCGCTAAAG-TCTGGTATATAGCAGAG
* *
845616 TTTTGAGGATACAAACGCCGCTAAAGGTCTGGTTTATAG-AGGAG
1 TTTTTAGGATACAAACGCCGCTAAA-GTCTGGTATATAGCA-GAG
* * *
845660 TTTTTAGGATACAAACGCCACAAAATGTATGGTATATAGC-GACG
1 TTTTTAGGATACAAACGCCGCTAAA-GTCTGGTATATAGCAGA-G
* *
845704 TTTTT-CGTTACAAACGCCGC
1 TTTTTAGGATACAAACGCCGC
845724 CAAAAAGCAT
Statistics
Matches: 91, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
43 20 0.22
44 70 0.77
45 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (43 bp):
TTTTTAGGATACAAACGCCGCTAAAGTCTGGTATATAGCAGAG
Found at i:846068 original size:21 final size:21
Alignment explanation
Indices: 846044--846102 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
846034 TCTGCTGATA
*
846044 TGTTGATTCTCTCTGTGCTGC
1 TGTTGATTCTCTCTGTGCTAC
* *
846065 TGTTGCTTCTCTCTATGCTAC
1 TGTTGATTCTCTCTGTGCTAC
*
846086 CGTT-ACTTCTCTCTGTG
1 TGTTGA-TTCTCTCTGTG
846103 TTGTCTCTGC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.07, C:0.27, G:0.19, T:0.47
Consensus pattern (21 bp):
TGTTGATTCTCTCTGTGCTAC
Found at i:846133 original size:21 final size:21
Alignment explanation
Indices: 846109--846158 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
846099 TGTGTTGTCT
846109 CTGCTTCCAATGCTGCTCTCG
1 CTGCTTCCAATGCTGCTCTCG
** *
846130 CTGCTTCCGCTGCTGCTCTCT
1 CTGCTTCCAATGCTGCTCTCG
*
846151 TTGCTTCC
1 CTGCTTCC
846159 CTTGCTTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.04, C:0.40, G:0.18, T:0.38
Consensus pattern (21 bp):
CTGCTTCCAATGCTGCTCTCG
Found at i:850661 original size:20 final size:21
Alignment explanation
Indices: 850617--850689 Score: 112
Period size: 22 Copynumber: 3.4 Consensus size: 21
850607 TTGTTGGGTT
850617 TTCAAAAGCTATTATTTTCCTA
1 TTCAAAAGCTATTATTTT-CTA
850639 TTCAAAAGCTA-TATTTTCTA
1 TTCAAAAGCTATTATTTTCTA
850659 TTCAAAAGCTATTATTTTTCTA
1 TTCAAAAGCTATTA-TTTTCTA
*
850681 TTCGAAAGC
1 TTCAAAAGC
850690 AGAAAAACAC
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
20 14 0.29
21 8 0.17
22 26 0.54
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (21 bp):
TTCAAAAGCTATTATTTTCTA
Found at i:851368 original size:81 final size:79
Alignment explanation
Indices: 851266--851459 Score: 212
Period size: 79 Copynumber: 2.4 Consensus size: 79
851256 ACTAAATCTA
* * * ** *
851266 TATAGCGGCGTTTGTTGACAAATGCCGCTATAAACAAT-CATGTTGTGGCGTTTGTATAAAAATG
1 TATAGCGGCATTTGTTGACAAA-ACCACTATAAACAATAC-TGTTGCAGCGTTTGTAT-AAAACG
*
851330 CCGTTAAATTACTTCTG
63 CCGCTAAATTACTTCTG
* *
851347 TATAGTGGCATTTTTTGACAAAACCACTATAAACAATACTGTTGCAGCGTTTGTATAAAACGCCG
1 TATAGCGGCATTTGTTGACAAAACCACTATAAACAATACTGTTGCAGCGTTTGTATAAAACGCCG
* *
851412 CTAAATTACTACTA
66 CTAAATTACTTCTG
* * *
851426 TATTGCGGCGTTTGTTGAAAAAAGCCACTA-AAAC
1 TATAGCGGCATTTGTTGACAAAA-CCACTATAAAC
851460 CAGCTCTATT
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
79 41 0.43
80 34 0.36
81 20 0.21
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (79 bp):
TATAGCGGCATTTGTTGACAAAACCACTATAAACAATACTGTTGCAGCGTTTGTATAAAACGCCG
CTAAATTACTTCTG
Found at i:851538 original size:40 final size:40
Alignment explanation
Indices: 851403--851539 Score: 109
Period size: 40 Copynumber: 3.4 Consensus size: 40
851393 GCGTTTGTAT
* * *
851403 AAAACGCCGCTAAATTACTACTATATTGCGGCGTTTGTT-GA
1 AAAACGCCGCTAAATTACCACTCTATTGC-GC-ATTGTTAGA
* * * * *
851444 AAAAAGCCACTAAA--ACCAGCTCTATTCCGACGTTTTTAGCA
1 AAAACGCCGCTAAATTACCA-CTCTATTGCG-CATTGTTAG-A
* *
851485 ATAAACGCTGCTAAATTACCACTCTATTGTGCATTGTTAGA
1 A-AAACGCCGCTAAATTACCACTCTATTGCGCATTGTTAGA
851526 AAAACGCCGCTAAA
1 AAAACGCCGCTAAA
851540 ATATCATTTT
Statistics
Matches: 74, Mismatches: 15, Indels: 15
0.71 0.14 0.14
Matches are distributed among these distances:
39 8 0.11
40 21 0.28
41 16 0.22
42 17 0.23
43 8 0.11
44 4 0.05
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (40 bp):
AAAACGCCGCTAAATTACCACTCTATTGCGCATTGTTAGA
Found at i:853589 original size:35 final size:35
Alignment explanation
Indices: 853543--853620 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 35
853533 ATTTTAAAAC
* * *
853543 ATATAAAAAATATTTTTAATTCTTAAACATTTAAA
1 ATATATAAAATATTTGTAATCCTTAAACATTTAAA
*
853578 ATATATAAAATATTTGTAATCCTTAAACTTTTAAA
1 ATATATAAAATATTTGTAATCCTTAAACATTTAAA
853613 ATATATAA
1 ATATATAA
853621 TAAATTTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.42
Consensus pattern (35 bp):
ATATATAAAATATTTGTAATCCTTAAACATTTAAA
Done.