Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_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: 9158330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 33 of 35
Found at i:8552245 original size:15 final size:15
Alignment explanation
Indices: 8552225--8552266 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
8552215 CTTCATGGGG
*
8552225 TAAGAAGACAACGTC
1 TAAGAAGAAAACGTC
8552240 TAAGAAGAAAACGTC
1 TAAGAAGAAAACGTC
*
8552255 AAAGAAGGAAAA
1 TAAGAA-GAAAA
8552267 AGAAAGCATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.57, C:0.12, G:0.21, T:0.10
Consensus pattern (15 bp):
TAAGAAGAAAACGTC
Found at i:8558915 original size:2 final size:2
Alignment explanation
Indices: 8558908--8558948 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
8558898 TCAATCTACA
8558908 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8558949 ATTTACGAAA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8559034 original size:13 final size:13
Alignment explanation
Indices: 8559011--8559065 Score: 74
Period size: 13 Copynumber: 4.2 Consensus size: 13
8559001 AATGACGCTC
*
8559011 AATGAGCATCATA
1 AATGAGTATCATA
*
8559024 AATGTGTATCATA
1 AATGAGTATCATA
*
8559037 AATGAGTGTCATA
1 AATGAGTATCATA
*
8559050 AATGAGTGTCATA
1 AATGAGTATCATA
8559063 AAT
1 AAT
8559066 ACGCATCATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (13 bp):
AATGAGTATCATA
Found at i:8559040 original size:26 final size:26
Alignment explanation
Indices: 8559011--8559075 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
8559001 AATGACGCTC
*
8559011 AATGAGCATCATAAATGTGTATCATA
1 AATGAGCATCATAAATGAGTATCATA
** *
8559037 AATGAGTGTCATAAATGAGTGTCATA
1 AATGAGCATCATAAATGAGTATCATA
8559063 AAT-ACGCATCATA
1 AATGA-GCATCATA
8559076 GATTTATGAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 1 0.03
26 31 0.97
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (26 bp):
AATGAGCATCATAAATGAGTATCATA
Found at i:8566133 original size:2 final size:2
Alignment explanation
Indices: 8566126--8566165 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8566116 CGAGCCCATA
8566126 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
8566166 TAAAAATAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8567770 original size:3 final size:3
Alignment explanation
Indices: 8567762--8567832 Score: 90
Period size: 3 Copynumber: 23.3 Consensus size: 3
8567752 TATATGTATA
*
8567762 AAT AAT AAT AAT AAT AAT AA- ACAT AAT AAT AAT AAT GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
* *
8567807 AAT AAT AAT AAAT TAT AAT ATT AAT A
1 AAT AAT AAT -AAT AAT AAT AAT AAT A
8567833 TTTTTGTAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
2 1 0.02
3 54 0.92
4 4 0.07
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:8569631 original size:24 final size:24
Alignment explanation
Indices: 8569604--8569652 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
8569594 GAGATTGTTA
8569604 GAAACAATAGTGACATCTGGTGGC
1 GAAACAATAGTGACATCTGGTGGC
8569628 GAAACAATAGTGACATCTGGTGGC
1 GAAACAATAGTGACATCTGGTGGC
8569652 G
1 G
8569653 TTCGTCTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.20
Consensus pattern (24 bp):
GAAACAATAGTGACATCTGGTGGC
Found at i:8570956 original size:16 final size:16
Alignment explanation
Indices: 8570935--8570974 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
8570925 TTAATTTCAA
8570935 TTAATTAAATATAGAT
1 TTAATTAAATATAGAT
8570951 TTAATTAAATATAGAT
1 TTAATTAAATATAGAT
8570967 TTAATTAA
1 TTAATTAA
8570975 TTTGAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (16 bp):
TTAATTAAATATAGAT
Found at i:8570958 original size:20 final size:20
Alignment explanation
Indices: 8570928--8570976 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 20
8570918 CGAATATTTA
8570928 ATTTCAATTAATTAAATATAG
1 ATTT-AATTAATTAAATATAG
8570949 A--T--TTAATTAAATATAG
1 ATTTAATTAATTAAATATAG
8570965 ATTTAATTAATT
1 ATTTAATTAATT
8570977 TGAAATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 9
0.73 0.00 0.27
Matches are distributed among these distances:
16 15 0.62
18 1 0.04
19 1 0.04
20 6 0.25
21 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (20 bp):
ATTTAATTAATTAAATATAG
Found at i:8571101 original size:90 final size:90
Alignment explanation
Indices: 8570951--8571115 Score: 285
Period size: 90 Copynumber: 1.8 Consensus size: 90
8570941 AAATATAGAT
* * * *
8570951 TTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCTTGATATGATTAGGGTAACTTGG
1 TTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGTAACTTGG
8571016 ATATAAAAGGATTATTAAATTCTAA
66 ATATAAAAGGATTATTAAATTCTAA
8571041 TTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGTAACTTGG
1 TTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGTAACTTGG
*
8571106 TTATAAAAGG
66 ATATAAAAGG
8571116 GTGTGTTAGG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 70 1.00
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (90 bp):
TTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGTAACTTGG
ATATAAAAGGATTATTAAATTCTAA
Found at i:8572542 original size:14 final size:14
Alignment explanation
Indices: 8572501--8572542 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
8572491 TTTACTTTTT
* *
8572501 GTTTCAACTTTCAT
1 GTTTCAACCTTCAA
8572515 GTTTCAACCTTCAA
1 GTTTCAACCTTCAA
8572529 GTTTCAACCTTCAA
1 GTTTCAACCTTCAA
8572543 AATTAGATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.40
Consensus pattern (14 bp):
GTTTCAACCTTCAA
Found at i:8574793 original size:22 final size:21
Alignment explanation
Indices: 8574766--8574821 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
8574756 TTATACAAGG
8574766 GGGGGGGAATCGGTACCCCCT
1 GGGGGGGAATCGGTACCCCCT
8574787 GGGGGGGAATCGGTACCCCCT
1 GGGGGGGAATCGGTACCCCCT
*
8574808 TGGGGGGAATCGGT
1 GGGGGGGAATCGGT
8574822 TCCCTCCGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.14, C:0.23, G:0.46, T:0.16
Consensus pattern (21 bp):
GGGGGGGAATCGGTACCCCCT
Found at i:8575210 original size:13 final size:13
Alignment explanation
Indices: 8575186--8575229 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
8575176 TTTAATAATT
8575186 TTAAGATTTTGAAA
1 TTAAG-TTTTGAAA
8575200 TTAAGTTTTGAAA
1 TTAAGTTTTGAAA
**
8575213 TTACTCTTTTGAAA
1 TTA-AGTTTTGAAA
8575227 TTA
1 TTA
8575230 CTCCCCCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (13 bp):
TTAAGTTTTGAAA
Found at i:8575222 original size:14 final size:14
Alignment explanation
Indices: 8575192--8575232 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
8575182 AATTTTAAGA
**
8575192 TTTTGAAATTA-AG
1 TTTTGAAATTACTC
8575205 TTTTGAAATTACTC
1 TTTTGAAATTACTC
8575219 TTTTGAAATTACTC
1 TTTTGAAATTACTC
8575233 CCCCTTACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.49
Consensus pattern (14 bp):
TTTTGAAATTACTC
Found at i:8577130 original size:25 final size:26
Alignment explanation
Indices: 8577102--8577152 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
8577092 CAAAACACAA
8577102 TAATTT-GAAAA-TTAACATTTTTTTT
1 TAATTTCGAAAATTTAA-ATTTTTTTT
8577127 TAATTTCGAAAATTTAAATTTTTTTT
1 TAATTTCGAAAATTTAAATTTTTTTT
8577153 GGAAAATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 6 0.25
26 14 0.58
27 4 0.17
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (26 bp):
TAATTTCGAAAATTTAAATTTTTTTT
Found at i:8577361 original size:20 final size:20
Alignment explanation
Indices: 8577324--8577362 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8577314 AAATTGAGTG
* * *
8577324 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
8577344 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
8577363 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:8577585 original size:20 final size:21
Alignment explanation
Indices: 8577539--8577599 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
8577529 TTCCCCTGTG
8577539 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
8577562 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
8577582 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
8577600 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:8585547 original size:3 final size:3
Alignment explanation
Indices: 8585541--8585614 Score: 64
Period size: 3 Copynumber: 25.0 Consensus size: 3
8585531 TAATAATTTT
* * *
8585541 TTA TTA TTA TTA TTA TTG TTA TTA -TA TTA ATA TTA ATA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
8585587 TTTA TTA ATA TTA CTT- TTA TTT TTA TTA
1 -TTA TTA TTA TTA -TTA TTA TTA TTA TTA
8585615 CATGCCTTTA
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
2 6 0.11
3 45 0.80
4 5 0.09
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:8591225 original size:55 final size:55
Alignment explanation
Indices: 8590832--8591211 Score: 584
Period size: 55 Copynumber: 6.9 Consensus size: 55
8590822 TACCGAAAGA
* *
8590832 CACTGTGT-T-CAAAACTAAGAAATTCATAATAAGTTTTTGAATTTTCGTATGGG
1 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
*
8590885 CACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
1 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
* *
8590940 CACTATGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
1 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
* * * ** *
8590995 AATTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTAGGAATTTTGGTATGGA
1 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
*
8591050 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGG
1 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
* * *
8591105 CACTATGTGTGCAAAACTAAGAAATTAATAACAAGTTTATGAATTTCCGTATGGG
1 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
* * *
8591160 CATTGTGTGTGCAAAACTACGAAATTCATAATGAGTTTATGAATTTCCGTAT
1 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
8591212 TGGTAGTGGG
Statistics
Matches: 297, Mismatches: 28, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
53 8 0.03
54 1 0.00
55 288 0.97
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.35
Consensus pattern (55 bp):
CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
Found at i:8594087 original size:17 final size:17
Alignment explanation
Indices: 8594065--8594117 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
8594055 AATTAAGAGT
8594065 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* *
8594082 TAGTTTGATGAATGAAC
1 TAGTTTAATAAATGAAC
*
8594099 TAGTTTAATTAATGAAC
1 TAGTTTAATAAATGAAC
8594116 TA
1 TA
8594118 ATTCCCTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.38
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:8594130 original size:34 final size:34
Alignment explanation
Indices: 8594065--8594135 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
8594055 AATTAAGAGT
* ** *
8594065 TAGTTTAATAAATGAACTAGTTTGATGAATGAAC
1 TAGTTTAATAAATGAACTAATTCCATAAATGAAC
* *
8594099 TAGTTTAATTAATGAACTAATTCCCTAAATGAAC
1 TAGTTTAATAAATGAACTAATTCCATAAATGAAC
8594133 TAG
1 TAG
8594136 ATGATTTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (34 bp):
TAGTTTAATAAATGAACTAATTCCATAAATGAAC
Found at i:8600614 original size:108 final size:108
Alignment explanation
Indices: 8600479--8600738 Score: 385
Period size: 108 Copynumber: 2.4 Consensus size: 108
8600469 ATTACCCAAC
* *
8600479 GACACTATGTGTGCAAATCACGAAATTCATCATATGTTTATGAACAACCGTTTCAGCACTATGTG
1 GACACTATGTGTGCAAATCACGGAATTCATAATATGTTTATGAACAACCGTTTCAGCACTATGTG
* *
8600544 TGCAAATCAAAAAATTCATCATATGTTGATGAACAACCGTTTA
66 TACAAATCAAAAAATTCATCATATGTTGATGAACAACCGTATA
* * * * * *
8600587 GGCACTATATGTGCAAATCACGGAATTCATTATATGTTAATGAACAACTGTTTCGGCACTATGTG
1 GACACTATGTGTGCAAATCACGGAATTCATAATATGTTTATGAACAACCGTTTCAGCACTATGTG
* *
8600652 TACAAATCATAGAATTCATCATATGTTGATGAACAACCGTATA
66 TACAAATCAAAAAATTCATCATATGTTGATGAACAACCGTATA
** *
8600695 GACACTATGTGTGCAACCCACAGAATTCATAATATGTTTATGAA
1 GACACTATGTGTGCAAATCACGGAATTCATAATATGTTTATGAA
8600739 TGTCCGTATG
Statistics
Matches: 134, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 134 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.31
Consensus pattern (108 bp):
GACACTATGTGTGCAAATCACGGAATTCATAATATGTTTATGAACAACCGTTTCAGCACTATGTG
TACAAATCAAAAAATTCATCATATGTTGATGAACAACCGTATA
Found at i:8600757 original size:54 final size:54
Alignment explanation
Indices: 8600481--8600738 Score: 331
Period size: 54 Copynumber: 4.8 Consensus size: 54
8600471 TACCCAACGA
*
8600481 CACTATGTGTGCAAATCAC-GAAATTCATCATATGTTTATGAACAACCGTTTCA-G
1 CACTATGTGTGCAAATCACAG-AATTCATCATATGTTGATGAACAACCGTTT-AGG
* *
8600535 CACTATGTGTGCAAATCAAAAAATTCATCATATGTTGATGAACAACCGTTTAGG
1 CACTATGTGTGCAAATCACAGAATTCATCATATGTTGATGAACAACCGTTTAGG
* * * * * *
8600589 CACTATATGTGCAAATCACGGAATTCATTATATGTTAATGAACAACTGTTTCGG
1 CACTATGTGTGCAAATCACAGAATTCATCATATGTTGATGAACAACCGTTTAGG
* * * *
8600643 CACTATGTGTACAAATCATAGAATTCATCATATGTTGATGAACAACCGTATAGA
1 CACTATGTGTGCAAATCACAGAATTCATCATATGTTGATGAACAACCGTTTAGG
** * *
8600697 CACTATGTGTGCAACCCACAGAATTCATAATATGTTTATGAA
1 CACTATGTGTGCAAATCACAGAATTCATCATATGTTGATGAA
8600739 TGTCCGTATG
Statistics
Matches: 175, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
53 1 0.01
54 174 0.99
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.31
Consensus pattern (54 bp):
CACTATGTGTGCAAATCACAGAATTCATCATATGTTGATGAACAACCGTTTAGG
Found at i:8606879 original size:22 final size:21
Alignment explanation
Indices: 8606827--8606882 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
8606817 AAAAAATGGT
*
8606827 ATCGATACCATA--ATAGAGT
1 ATCGATACCATAGTATAGAGC
* *
8606846 ATCAATATCATAGTATAGTAGC
1 ATCGATACCATAGTATAG-AGC
8606868 ATCGATACCATAGTA
1 ATCGATACCATAGTA
8606883 GGGGTGTCGA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 10 0.34
21 4 0.14
22 15 0.52
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (21 bp):
ATCGATACCATAGTATAGAGC
Found at i:8607285 original size:54 final size:53
Alignment explanation
Indices: 8607214--8607473 Score: 270
Period size: 54 Copynumber: 4.8 Consensus size: 53
8607204 ATTACAAAAT
* * *
8607214 GACATTATGTGTACAAATCACAGAATTCATCATATGTTGATGAACAACTGTTTC
1 GACACTATGTGTGCAAATCAC-GAATTCATCATATGTTGATGAACAACCGTTTC
* * *
8607268 GACACTATGTGTGCAAATAACGAAATTCGTCATATGTTGATGAACAACTGTTTC
1 GACACTATGTGTGCAAATCACG-AATTCATCATATGTTGATGAACAACCGTTTC
* * *
8607322 -AGCATTATATGTGCAAATCACGGAATTCATCATATGTTGATGAACAACCGTTTT
1 GA-CACTATGTGTGCAAATCAC-GAATTCATCATATGTTGATGAACAACCGTTTC
* * * * *
8607376 GGCACTATGTGTACAAATCACGAAATTCTTCATATGTTGATGAACAACCGTATA
1 GACACTATGTGTGCAAATCACG-AATTCATCATATGTTGATGAACAACCGTTTC
* * ** * * *
8607430 GGCACTATGTTTGCAACCCACATAATTCATAATATGTTTATGAA
1 GACACTATGTGTGCAAATCAC-GAATTCATCATATGTTGATGAA
8607474 TGACCATATG
Statistics
Matches: 175, Mismatches: 25, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
53 3 0.02
54 171 0.98
55 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Consensus pattern (53 bp):
GACACTATGTGTGCAAATCACGAATTCATCATATGTTGATGAACAACCGTTTC
Found at i:8607409 original size:108 final size:108
Alignment explanation
Indices: 8607216--8607423 Score: 335
Period size: 108 Copynumber: 1.9 Consensus size: 108
8607206 TACAAAATGA
* * *
8607216 CATTATGTGTACAAATCACAGAATTCATCATATGTTGATGAACAACTGTTTCGACACTATGTGTG
1 CATTATATGTACAAATCACAGAATTCATCATATGTTGATGAACAACCGTTTCGACACTATGTGTA
8607281 CAAATAACGAAATTCGTCATATGTTGATGAACAACTGTTTCAG
66 CAAATAACGAAATTCGTCATATGTTGATGAACAACTGTTTCAG
* * * *
8607324 CATTATATGTGCAAATCACGGAATTCATCATATGTTGATGAACAACCGTTTTGGCACTATGTGTA
1 CATTATATGTACAAATCACAGAATTCATCATATGTTGATGAACAACCGTTTCGACACTATGTGTA
* *
8607389 CAAATCACGAAATTCTTCATATGTTGATGAACAAC
66 CAAATAACGAAATTCGTCATATGTTGATGAACAAC
8607424 CGTATAGGCA
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 91 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Consensus pattern (108 bp):
CATTATATGTACAAATCACAGAATTCATCATATGTTGATGAACAACCGTTTCGACACTATGTGTA
CAAATAACGAAATTCGTCATATGTTGATGAACAACTGTTTCAG
Found at i:8607445 original size:108 final size:108
Alignment explanation
Indices: 8607227--8607473 Score: 325
Period size: 108 Copynumber: 2.3 Consensus size: 108
8607217 ATTATGTGTA
* *
8607227 CAAATCACAGAATTCATCATATGTTGATGAACAACTGTTTCGACACTATGTGTGCAAATAACGAA
1 CAAATCACAGAATTCATCATATGTTGATGAACAACCGTTTCGACACTATGTGTACAAATAACGAA
* * *
8607292 ATTCGTCATATGTTGATGAACAACTGTTTCAGCATTATATGTG
66 ATTCGTCATATGTTGATGAACAACCGTATCAGCACTATATGTG
* * * *
8607335 CAAATCACGGAATTCATCATATGTTGATGAACAACCGTTTTGGCACTATGTGTACAAATCACGAA
1 CAAATCACAGAATTCATCATATGTTGATGAACAACCGTTTCGACACTATGTGTACAAATAACGAA
* * *
8607400 ATTCTTCATATGTTGATGAACAACCGTAT-AGGCACTATGTTTG
66 ATTCGTCATATGTTGATGAACAACCGTATCA-GCACTATATGTG
** * * *
8607443 CAACCCACATAATTCATAATATGTTTATGAA
1 CAAATCACAGAATTCATCATATGTTGATGAA
8607474 TGACCATATG
Statistics
Matches: 120, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
107 1 0.01
108 119 0.99
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (108 bp):
CAAATCACAGAATTCATCATATGTTGATGAACAACCGTTTCGACACTATGTGTACAAATAACGAA
ATTCGTCATATGTTGATGAACAACCGTATCAGCACTATATGTG
Found at i:8613628 original size:17 final size:15
Alignment explanation
Indices: 8613592--8613632 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
8613582 TTCCTTTTAT
8613592 TCATTTT-TTA-TTA
1 TCATTTTATTACTTA
8613605 TCATTTTTATTACTTA
1 TCA-TTTTATTACTTA
8613621 TCCATTTTATTA
1 T-CATTTTATTA
8613633 TATCCTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.12
14 4 0.17
15 3 0.12
16 12 0.50
17 2 0.08
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.63
Consensus pattern (15 bp):
TCATTTTATTACTTA
Found at i:8623795 original size:20 final size:20
Alignment explanation
Indices: 8623770--8623814 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
8623760 CATCTTCAGC
8623770 TCAAACACAAGGAAAATAGA
1 TCAAACACAAGGAAAATAGA
*
8623790 TCAAACACAAGGAAAATAGC
1 TCAAACACAAGGAAAATAGA
8623810 TCAAA
1 TCAAA
8623815 TGATGAAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.58, C:0.18, G:0.13, T:0.11
Consensus pattern (20 bp):
TCAAACACAAGGAAAATAGA
Found at i:8633387 original size:191 final size:194
Alignment explanation
Indices: 8633020--8633410 Score: 736
Period size: 191 Copynumber: 2.0 Consensus size: 194
8633010 CATGCATGAA
*
8633020 ATTATACGGATGTATTATACATCATCAGGAAGACTTGCGATAAGTCGACCTTGTTTTATCAGCAT
1 ATTATGCGGATGTATTATACATCATCAGGAAGACTTGCGATAAGTCGACCTTGTTTTATCAGCAT
8633085 GATATTATATCATATTTTTATAAATTGATATGACATTGATATGTCATAGTATGAAATTATAATGC
66 GATATTATATCATATTTTTATAAATTGATATGACATTGATATGTCATAGTATGAAATTATAATGC
8633150 TTTGATTTTTGAAAATGTGCTATTTTACCATGAATGTTATTCGGGTATGAACTGCCCAATGTTAT
131 TTTGATTTTTGAAAATGTGCTATTTTACCATGAATGTTATTCGGGTATGAACTG-CCAATGTTAT
8633215 ATTATGCGGATGTATTATACATCATCAGG-A-ACTTGCGATAAGTCGACCTTGTTTTATCAGCAT
1 ATTATGCGGATGTATTATACATCATCAGGAAGACTTGCGATAAGTCGACCTTGTTTTATCAGCAT
8633278 GATATTATATCATA-TTTTATAAATTGATATGACATTGATATGTCATAGTATGAAATTAT-ATGC
66 GATATTATATCATATTTTTATAAATTGATATGACATTGATATGTCATAGTATGAAATTATAATGC
8633341 TTTGATTTTTGAAAATGTGCTATTTTACCATGAATGTTATTCGGGTATGAACTGCCAATGTTAT
131 TTTGATTTTTGAAAATGTGCTATTTTACCATGAATGTTATTCGGGTATGAACTGCCAATGTTAT
8633405 ATTATG
1 ATTATG
8633411 ATAATATGCT
Statistics
Matches: 195, Mismatches: 1, Indels: 5
0.97 0.00 0.02
Matches are distributed among these distances:
190 16 0.08
191 58 0.30
192 45 0.23
193 47 0.24
194 1 0.01
195 28 0.14
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (194 bp):
ATTATGCGGATGTATTATACATCATCAGGAAGACTTGCGATAAGTCGACCTTGTTTTATCAGCAT
GATATTATATCATATTTTTATAAATTGATATGACATTGATATGTCATAGTATGAAATTATAATGC
TTTGATTTTTGAAAATGTGCTATTTTACCATGAATGTTATTCGGGTATGAACTGCCAATGTTAT
Found at i:8634797 original size:24 final size:24
Alignment explanation
Indices: 8634746--8634798 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
8634736 CTTGGATCAA
* *
8634746 CAAAAGTCACAACTATTTGTTCTT
1 CAAAAGTCACAACTATTTGTCCTC
*
8634770 CAAAAGTCACATCT-TTTAGTCCTC
1 CAAAAGTCACAACTATTT-GTCCTC
8634794 CAAAA
1 CAAAA
8634799 ACCATGATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.32
Consensus pattern (24 bp):
CAAAAGTCACAACTATTTGTCCTC
Found at i:8635954 original size:30 final size:31
Alignment explanation
Indices: 8635894--8635964 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
8635884 AAATGGAAAG
* *
8635894 ATAAAAGAAATGGTTTAAGGAAAGGAAATGA
1 ATAAAAGAAATAGTTTAAGGAAAAGAAATGA
*
8635925 ATAAATGAAATAGTTT-AGGAAAA-AGAATGAA
1 ATAAAAGAAATAGTTTAAGGAAAAGA-AATG-A
*
8635956 ATCAAAGAA
1 ATAAAAGAA
8635965 GGAATGGGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
29 1 0.03
30 10 0.30
31 22 0.67
ACGTcount: A:0.58, C:0.01, G:0.21, T:0.20
Consensus pattern (31 bp):
ATAAAAGAAATAGTTTAAGGAAAAGAAATGA
Found at i:8638789 original size:180 final size:180
Alignment explanation
Indices: 8638487--8638845 Score: 682
Period size: 180 Copynumber: 2.0 Consensus size: 180
8638477 ATCAACATCC
8638487 AGCTCTTCATCAGCTCACTCGCCTTGCAACCTACCTTTTCATGAAGAGGTGCCATGAAAGGTCAT
1 AGCTCTTCATCAGCTCACTCGCCTTGCAACCTACCTTTTCATGAAGAGGTGCCATGAAAGGTCAT
*
8638552 TATTGAAGGGATGGCTGCATTGGTGAAGTTGTTTTAGCCAAAAGATGCCTAAATCATAAAGAGGT
66 TATTGAAGGGATGGCTGCATTGGTGAAGTTGTTTCAGCCAAAAGATGCCTAAATCATAAAGAGGT
8638617 ATGAGGGACACCAAGGAAACTATTCGATCAATGTTTGAAGAGTTACCAAT
131 ATGAGGGACACCAAGGAAACTATTCGATCAATGTTTGAAGAGTTACCAAT
*
8638667 AGCTCTTCATCAGCTCACTCGTCTTGCAACCTACCTTTTCATGAAGAGGTGCCATGAAAGGTCAT
1 AGCTCTTCATCAGCTCACTCGCCTTGCAACCTACCTTTTCATGAAGAGGTGCCATGAAAGGTCAT
*
8638732 TATTGAAGGGATGGTTGCATTGGTGAAGTTGTTTCAGCCAAAAGATGCCTAAATCATAAAGAGGT
66 TATTGAAGGGATGGCTGCATTGGTGAAGTTGTTTCAGCCAAAAGATGCCTAAATCATAAAGAGGT
*
8638797 ATGAGGGACACCAAGGAAACTATTCGATCAATGTTTGAGGAGTTACCAA
131 ATGAGGGACACCAAGGAAACTATTCGATCAATGTTTGAAGAGTTACCAA
8638846 GATGGGCGAC
Statistics
Matches: 175, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
180 175 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (180 bp):
AGCTCTTCATCAGCTCACTCGCCTTGCAACCTACCTTTTCATGAAGAGGTGCCATGAAAGGTCAT
TATTGAAGGGATGGCTGCATTGGTGAAGTTGTTTCAGCCAAAAGATGCCTAAATCATAAAGAGGT
ATGAGGGACACCAAGGAAACTATTCGATCAATGTTTGAAGAGTTACCAAT
Found at i:8640369 original size:19 final size:20
Alignment explanation
Indices: 8640342--8640379 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
8640332 TAGGCAAGCA
*
8640342 AATCTATGCAAGT-ATATAC
1 AATCGATGCAAGTAATATAC
8640361 AATCGATGCAAGTAATATA
1 AATCGATGCAAGTAATATA
8640380 GTAGTGAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (20 bp):
AATCGATGCAAGTAATATAC
Found at i:8664490 original size:25 final size:25
Alignment explanation
Indices: 8664436--8664493 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
8664426 TTTTCTTTTT
8664436 TTTTTCTTCTTTTTGAGTGCTTGAA
1 TTTTTCTTCTTTTTGAGTGCTTGAA
* *
8664461 ATTTTCTTC-TTTTGAGTGCTTGCAC
1 TTTTTCTTCTTTTTGAGTGCTTG-AA
8664486 TTTTTCTT
1 TTTTTCTT
8664494 TGCTGAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 13 0.45
25 16 0.55
ACGTcount: A:0.10, C:0.16, G:0.14, T:0.60
Consensus pattern (25 bp):
TTTTTCTTCTTTTTGAGTGCTTGAA
Found at i:8669348 original size:13 final size:13
Alignment explanation
Indices: 8669330--8669368 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
8669320 GTCATAAATC
* *
8669330 TATGACGTGTATT
1 TATGACGCGCATT
8669343 TATGACGCGCATT
1 TATGACGCGCATT
*
8669356 TATGATGCGCATT
1 TATGACGCGCATT
8669369 GCGCGTCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:8669453 original size:13 final size:13
Alignment explanation
Indices: 8669437--8669466 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8669427 GTATGACATG
*
8669437 CATTTATGACTTA
1 CATTTACGACTTA
8669450 CATTTACGACTTA
1 CATTTACGACTTA
8669463 CATT
1 CATT
8669467 GCGTGTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (13 bp):
CATTTACGACTTA
Found at i:8669454 original size:98 final size:97
Alignment explanation
Indices: 8669313--8669517 Score: 227
Period size: 98 Copynumber: 2.1 Consensus size: 97
8669303 ATGACACGTA
* * * * *
8669313 ATTTTGTGTCATAAATCTATGACGTGTATTTATGACGCGCATTTATGA-TGCGCATTGCGCGTCA
1 ATTTTGTGTCATAAATCTATGACATGCATTTATGACGCACATTTACGACT-CACATTGCGCGTCA
* * *
8669377 TTGAAG-CCCCTGTCA-TAAATGAAGATGACACAC
65 TTGAAGTACAC-GTCATTAAA-AAAGATGACACAC
* ** * *
8669410 ATTTATGTGTCATAAATGTATGACATGCATTTATGACTTACATTTACGACTTACATTGCGTGTCA
1 ATTT-TGTGTCATAAATCTATGACATGCATTTATGACGCACATTTACGACTCACATTGCGCGTCA
8669475 TTGAAGTACACGTCATTAAAAAAGATGACACAC
65 TTGAAGTACACGTCATTAAAAAAGATGACACAC
8669508 ATTTGTGTGT
1 ATTT-TGTGT
8669518 TGTGATTGTA
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
97 4 0.04
98 79 0.88
99 7 0.08
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (97 bp):
ATTTTGTGTCATAAATCTATGACATGCATTTATGACGCACATTTACGACTCACATTGCGCGTCAT
TGAAGTACACGTCATTAAAAAAGATGACACAC
Found at i:8672401 original size:17 final size:17
Alignment explanation
Indices: 8672379--8672419 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
8672369 CGAAGATTCA
8672379 AAGCATATCTATTTGGT
1 AAGCATATCTATTTGGT
8672396 AAGCATATCTATTTGGT
1 AAGCATATCTATTTGGT
8672413 AAGCATA
1 AAGCATA
8672420 ATATGAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (17 bp):
AAGCATATCTATTTGGT
Found at i:8676262 original size:21 final size:21
Alignment explanation
Indices: 8676236--8676276 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8676226 CTTGTGCTCA
8676236 ACTCATCATAGCATATTGCAT
1 ACTCATCATAGCATATTGCAT
*
8676257 ACTCATCATGGCATATTGCA
1 ACTCATCATAGCATATTGCA
8676277 AATGGAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (21 bp):
ACTCATCATAGCATATTGCAT
Found at i:8683020 original size:2 final size:2
Alignment explanation
Indices: 8683008--8683045 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
8682998 AGCTTTATTG
* *
8683008 TA TA T- TA TA TA TA TA TA TA TA TA TA TT TA CA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8683046 TTGTTGGGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:8685415 original size:27 final size:28
Alignment explanation
Indices: 8685385--8685440 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
8685375 TGAAAAATGA
* *
8685385 TATAAACAAAGAAAAG-AAATAAGTTAG
1 TATAAACAAACAAAAGAAAATAAATTAG
*
8685412 TATACACAAACAAAAGAAAATAAATTAG
1 TATAAACAAACAAAAGAAAATAAATTAG
8685440 T
1 T
8685441 TAATACAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.62, C:0.07, G:0.11, T:0.20
Consensus pattern (28 bp):
TATAAACAAACAAAAGAAAATAAATTAG
Found at i:8687127 original size:21 final size:22
Alignment explanation
Indices: 8687101--8687141 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
8687091 ACATATGAAG
8687101 TAAAATAA-AATATTTACAACA
1 TAAAATAACAATATTTACAACA
8687122 TAAAATAACAATATTTACAA
1 TAAAATAACAATATTTACAA
8687142 TATGTACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAATAACAATATTTACAACA
Found at i:8687897 original size:2 final size:2
Alignment explanation
Indices: 8687886--8687921 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
8687876 TTTCTCAAAT
8687886 AG AG AG -G AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
8687922 ATCATCAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8689168 original size:68 final size:68
Alignment explanation
Indices: 8689041--8689168 Score: 168
Period size: 68 Copynumber: 1.9 Consensus size: 68
8689031 TACTCAATGG
* * *
8689041 CACTTAATCATTCATCTAACCGACATAATTGACACCTTTCTGTCAATTGCTCAGCTAGGCTTCAA
1 CACTTAATCATTCATCTAACCGACATAAATGACACCTTTATGTCAATTGCACAGCTAGGCTTCAA
8689106 AGA
66 AGA
* * * * *
8689109 CACTTAGTCTTTCATCTAACTGGCATAAATGACACCTTTATGTC-ATATGCACAGTTAGGC
1 CACTTAATCATTCATCTAACCGACATAAATGACACCTTTATGTCAAT-TGCACAGCTAGGC
8689169 CTCTTGATCT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
67 2 0.04
68 49 0.96
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (68 bp):
CACTTAATCATTCATCTAACCGACATAAATGACACCTTTATGTCAATTGCACAGCTAGGCTTCAA
AGA
Found at i:8689674 original size:57 final size:57
Alignment explanation
Indices: 8689607--8689863 Score: 433
Period size: 57 Copynumber: 4.5 Consensus size: 57
8689597 GTCCAATACA
*
8689607 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACACCCTATCT
* *
8689664 GAAATTCATACACTTAGTATAATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACACCCTATCT
* * * *
8689721 GAAATTCATATACTTCGTATGATTTCTTAACATTTTAGCGTATGAAACAACCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACACCCTATCT
* *
8689778 GAAATTCATACAATTAGTATGATTTCTTAACATTTTAACGTACGAAACACCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACACCCTATCT
8689835 GAAATTCATACACTTAGTATGATTTCTTA
1 GAAATTCATACACTTAGTATGATTTCTTA
8689864 TATTTTGCAC
Statistics
Matches: 186, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 186 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.37
Consensus pattern (57 bp):
GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACACCCTATCT
Found at i:8690357 original size:95 final size:94
Alignment explanation
Indices: 8690205--8690427 Score: 236
Period size: 95 Copynumber: 2.4 Consensus size: 94
8690195 TGGCTCTATA
* * * * *
8690205 GTATCGATACCCCTA-TCATGATATCGATACTACTATACTATGGTACCAATACCCCCTTCTGGTA
1 GTATCGATACCCTTACT-ATGGTATCGATACTACTATACTATGGTACCAATACCCCTTTCCGATA
* ** * ****
8690269 TCGATACCAATTTTTTATTCGATGTTGCTTG
65 TCGAAACC-ATTTTAGATTCAATGTAAAGTG
* *
8690300 GTATCGATACCCTTACTATGGTATCGACACTACTATA-TATTACGGTACCGATA-CCCTTTCCGA
1 GTATCGATACCCTTACTATGGTATCGATACTACTATACTA-T--GGTACCAATACCCCTTTCCGA
8690363 TATCGAAACCATTTTAGATTCAATGTAAAGTG
63 TATCGAAACCATTTTAGATTCAATGTAAAGTG
*
8690395 GTATCGATACCCTTACCATGGTATCGATACTAC
1 GTATCGATACCCTTACTATGGTATCGATACTAC
8690428 CTTGTCGGTA
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
94 2 0.02
95 79 0.74
96 17 0.16
97 9 0.08
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (94 bp):
GTATCGATACCCTTACTATGGTATCGATACTACTATACTATGGTACCAATACCCCTTTCCGATAT
CGAAACCATTTTAGATTCAATGTAAAGTG
Found at i:8696605 original size:76 final size:77
Alignment explanation
Indices: 8696479--8696623 Score: 229
Period size: 76 Copynumber: 1.9 Consensus size: 77
8696469 TTCTATACAA
* *
8696479 TCTAATTGCACTTGGAGTAGTTCAAAACTGTGGGTCCATACCACTTGAAGA-CAATGTAGAGGCT
1 TCTAATTGCACTTGAAGTAGTTCAAAACGGTGGGTCCATACCACTTGAAGAGCAATGTAGAGGCT
8696543 CCACCTGTATAG
66 CCACCTGTATAG
* * * *
8696555 TCTAATTGCACTTGAAGTCGTTCAAAAGGGTGGGTCCATGCCACTTGAAGAGTAATGTAGAGGCT
1 TCTAATTGCACTTGAAGTAGTTCAAAACGGTGGGTCCATACCACTTGAAGAGCAATGTAGAGGCT
8696620 CCAC
66 CCAC
8696624 AATTCAGCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
76 46 0.74
77 16 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (77 bp):
TCTAATTGCACTTGAAGTAGTTCAAAACGGTGGGTCCATACCACTTGAAGAGCAATGTAGAGGCT
CCACCTGTATAG
Found at i:8697320 original size:60 final size:60
Alignment explanation
Indices: 8697214--8697378 Score: 206
Period size: 60 Copynumber: 2.8 Consensus size: 60
8697204 ATTCTTATTT
** * * * *
8697214 TAAATTAGACCTTAAACTTTTAAACATTCTAATTTCATCCCCAAACTATGACTCTCATTC
1 TAAATTACTCCTTAAACTTTTGAACATTCTAATTTCAACCCCAAACTATGACTATCATTA
* * *
8697274 TAGATTACTCCTTAAACTTTTGAACATTCAAATTTCAACCCTAAACTATGACTATCATTA
1 TAAATTACTCCTTAAACTTTTGAACATTCTAATTTCAACCCCAAACTATGACTATCATTA
* * *
8697334 TAAATTAGTCCCTAAACTTTTGAATC-TTCTAATTTCATCCCCAAA
1 TAAATTACTCCTTAAACTTTTGAA-CATTCTAATTTCAACCCCAAA
8697379 TATATAATTA
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
60 88 0.99
61 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (60 bp):
TAAATTACTCCTTAAACTTTTGAACATTCTAATTTCAACCCCAAACTATGACTATCATTA
Found at i:8697700 original size:4 final size:4
Alignment explanation
Indices: 8697685--8697809 Score: 133
Period size: 4 Copynumber: 31.2 Consensus size: 4
8697675 ATAAATAGAT
* *
8697685 AGAC AGAT AGAC AGAC AAAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC
* * * * * * *
8697733 TGAT AGAC AGAC TGAT AGAC AGAC AGAT AGAC AGAC AGAT AGAT AGAC
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC
* * * *
8697781 AGAT AAAT AGAC AGAC AGAT AGAC AGAC A
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC A
8697810 TTGATAGATA
Statistics
Matches: 99, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 99 1.00
ACGTcount: A:0.50, C:0.18, G:0.23, T:0.09
Consensus pattern (4 bp):
AGAC
Found at i:8697833 original size:8 final size:8
Alignment explanation
Indices: 8697809--8698289 Score: 665
Period size: 8 Copynumber: 60.1 Consensus size: 8
8697799 ATAGACAGAC
*
8697809 ATTGATAG
1 ATTGATTG
*
8697817 ATAGATTG
1 ATTGATTG
8697825 ATTGATTG
1 ATTGATTG
8697833 ATTGATTG
1 ATTGATTG
8697841 ATTGATTG
1 ATTGATTG
8697849 ATTGATTG
1 ATTGATTG
8697857 ATTGATTG
1 ATTGATTG
8697865 ATTGATTG
1 ATTGATTG
8697873 ATTGATTG
1 ATTGATTG
8697881 ATTGATTG
1 ATTGATTG
8697889 ATTGATTG
1 ATTGATTG
8697897 ATTGATTG
1 ATTGATTG
8697905 ATTGATTG
1 ATTGATTG
8697913 ATTGATTG
1 ATTGATTG
8697921 ATTGATTG
1 ATTGATTG
* *
8697929 AATGATGG
1 ATTGATTG
* *
8697937 ATAGATGG
1 ATTGATTG
* *
8697945 ATAGATGG
1 ATTGATTG
* *
8697953 ATAGATGG
1 ATTGATTG
* *
8697961 ATAGATGG
1 ATTGATTG
* *
8697969 ATAGATGG
1 ATTGATTG
* *
8697977 ATAGATGG
1 ATTGATTG
* *
8697985 ATAGATGG
1 ATTGATTG
* *
8697993 ATAGATGG
1 ATTGATTG
* *
8698001 ATAGATGG
1 ATTGATTG
* *
8698009 ATAGATGG
1 ATTGATTG
* *
8698017 ATAGATGG
1 ATTGATTG
* *
8698025 ATAGATGG
1 ATTGATTG
* *
8698033 ATAGATGG
1 ATTGATTG
*
8698041 ATTGATGG
1 ATTGATTG
*
8698049 ATAGATTG
1 ATTGATTG
8698057 ATTGATTG
1 ATTGATTG
8698065 ATTGATTG
1 ATTGATTG
8698073 ATTGATTG
1 ATTGATTG
8698081 ATTGATTG
1 ATTGATTG
8698089 ATTGATTG
1 ATTGATTG
8698097 ATTGATTG
1 ATTGATTG
8698105 ATTGATTG
1 ATTGATTG
8698113 ATTGATTG
1 ATTGATTG
8698121 ATTGATTG
1 ATTGATTG
8698129 ATTGATTG
1 ATTGATTG
8698137 ATTGATTG
1 ATTGATTG
8698145 ATTGATTG
1 ATTGATTG
8698153 ATTGATTG
1 ATTGATTG
8698161 ATTGATTG
1 ATTGATTG
8698169 ATTGATTG
1 ATTGATTG
8698177 ATTGATTG
1 ATTGATTG
*
8698185 ATAGATTG
1 ATTGATTG
8698193 ATTGATTG
1 ATTGATTG
8698201 ATTGATTG
1 ATTGATTG
8698209 ATTGATTG
1 ATTGATTG
8698217 ATTGATTG
1 ATTGATTG
8698225 ATTGATTG
1 ATTGATTG
8698233 ATTGATTG
1 ATTGATTG
8698241 ATTGATTG
1 ATTGATTG
8698249 ATTGATTG
1 ATTGATTG
8698257 ATTGATTG
1 ATTGATTG
8698265 ATTGATTG
1 ATTGATTG
8698273 ATTGATTG
1 ATTGATTG
8698281 ATTGATTG
1 ATTGATTG
8698289 A
1 A
8698290 GTTAACCCAC
Statistics
Matches: 460, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 460 1.00
ACGTcount: A:0.29, C:0.00, G:0.28, T:0.43
Consensus pattern (8 bp):
ATTGATTG
Found at i:8698061 original size:4 final size:4
Alignment explanation
Indices: 8698040--8698289 Score: 473
Period size: 4 Copynumber: 62.5 Consensus size: 4
8698030 TGGATAGATG
* *
8698040 GATT GATG GATA GATT GATT GATT GATT GATT GATT GATT GATT GATT
1 GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT
8698088 GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT
1 GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT
8698136 GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT
1 GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT
*
8698184 GATA GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT
1 GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT
8698232 GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT
1 GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT GATT
8698280 GATT GATT GA
1 GATT GATT GA
8698290 GTTAACCCAC
Statistics
Matches: 241, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 241 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (4 bp):
GATT
Found at i:8699311 original size:39 final size:39
Alignment explanation
Indices: 8699201--8699312 Score: 154
Period size: 39 Copynumber: 2.9 Consensus size: 39
8699191 ATCCTTCTGA
* *
8699201 GGTTGCT-GGTGAATACCACGGTGATCCTAAGAAGTTGAT
1 GGTTGCTAGG-GAATACCAAGGTGATCCTAAGGAGTTGAT
* * * *
8699240 GGATACTAGCGAATACCAAGGTGATCCCAAGGAGTTGAT
1 GGTTGCTAGGGAATACCAAGGTGATCCTAAGGAGTTGAT
8699279 GGTTGCTAGGGAATACCAAGGTGATCCTAAGGAG
1 GGTTGCTAGGGAATACCAAGGTGATCCTAAGGAG
8699313 GTGGTGACCA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
39 61 0.98
40 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.23
Consensus pattern (39 bp):
GGTTGCTAGGGAATACCAAGGTGATCCTAAGGAGTTGAT
Found at i:8702521 original size:19 final size:19
Alignment explanation
Indices: 8702493--8702537 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
8702483 TTTTAAGTCG
* *
8702493 TGAAAATTAAAATTTAAAT
1 TGAAATTTAAAAATTAAAT
*
8702512 TGAAATTTAAAAATTCAAT
1 TGAAATTTAAAAATTAAAT
*
8702531 TCAAATT
1 TGAAATT
8702538 ACTTACCTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (19 bp):
TGAAATTTAAAAATTAAAT
Found at i:8702692 original size:25 final size:24
Alignment explanation
Indices: 8702664--8702732 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
8702654 AAAAGGTTTT
8702664 AAAAAATAATAAAAAAAACAAGTAA
1 AAAAAATAATAAAAAAAA-AAGTAA
* *
8702689 AAAAAGATAAT-AAAATAATAGTAA
1 AAAAA-ATAATAAAAAAAAAAGTAA
8702713 AAATGAAATAATAAAAAAAA
1 AAA--AAATAATAAAAAAAA
8702733 TCAACAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
24 8 0.22
25 16 0.43
26 13 0.35
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.16
Consensus pattern (24 bp):
AAAAAATAATAAAAAAAAAAGTAA
Found at i:8702731 original size:17 final size:17
Alignment explanation
Indices: 8702667--8702746 Score: 67
Period size: 17 Copynumber: 4.7 Consensus size: 17
8702657 AGGTTTTAAA
8702667 AAATAATAAAAAAAA-C
1 AAATAATAAAAAAAATC
* *
8702683 AAGTAA-AAAAAGATAATA
1 AAATAATAAAAA-A-AATC
** *
8702701 AAATAATAGTAAAAATG
1 AAATAATAAAAAAAATC
8702718 AAATAATAAAAAAAATC
1 AAATAATAAAAAAAATC
8702735 AACA-AATAAAAA
1 AA-ATAATAAAAA
8702747 GAAAAGCATA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
15 5 0.10
16 6 0.12
17 29 0.58
18 7 0.14
19 3 0.06
ACGTcount: A:0.75, C:0.04, G:0.05, T:0.16
Consensus pattern (17 bp):
AAATAATAAAAAAAATC
Found at i:8702767 original size:23 final size:22
Alignment explanation
Indices: 8702741--8702798 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 22
8702731 AATCAACAAA
8702741 TAAAAAGAAAAGCATACTAAAAT
1 TAAAAAGAAAAG-ATACTAAAAT
8702764 TAAAAAGAAAA-ATACTAAAAT
1 TAAAAAGAAAAGATACTAAAAT
*
8702785 AAAATAACGAAAAG
1 TAAA-AA-GAAAAG
8702799 TTAAAGGGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 13 0.42
22 2 0.06
23 16 0.52
ACGTcount: A:0.69, C:0.07, G:0.09, T:0.16
Consensus pattern (22 bp):
TAAAAAGAAAAGATACTAAAAT
Found at i:8702780 original size:21 final size:21
Alignment explanation
Indices: 8702738--8702788 Score: 77
Period size: 23 Copynumber: 2.4 Consensus size: 21
8702728 AAAAATCAAC
8702738 AAATAAAAAGAAAAGCATACTA
1 AAATAAAAAGAAAA-CATACTA
8702760 AAATTAAAAAGAAAA-ATACTA
1 AAA-TAAAAAGAAAACATACTA
8702781 AAATAAAA
1 AAATAAAA
8702789 TAACGAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.18
21 9 0.32
22 3 0.11
23 11 0.39
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.16
Consensus pattern (21 bp):
AAATAAAAAGAAAACATACTA
Found at i:8704960 original size:83 final size:83
Alignment explanation
Indices: 8704729--8704963 Score: 283
Period size: 83 Copynumber: 2.8 Consensus size: 83
8704719 TACTTCCCCA
* * * ** * *
8704729 AGCTGAATGGAATCGAACTCGACA-TTCTTTATTGACAGATAGCTTTTCTCGACTTAAGCTATGC
1 AGCTGAATGAAATCGAACTCGA-AGGTC--TGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
* *
8704793 TATAAATTTAATGTGCCCTTG
63 TGTAAATTTAATATGCCCTTG
*
8704814 AGCTGAATGAAATCGAACTCGAAGGTCTGTTGACAGATAGCCCTTCTCGCCATGAGCTATGCTGT
1 AGCTGAATGAAATCGAACTCGAAGGTCTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGT
* * *
8704879 AAGTTTGATATGTCCTTG
66 AAATTTAATATGCCCTTG
* * * *
8704897 AGCTGAGTGTAATCGAACTCGAAGGTTTGTTGATAGATAGCCCTTCTCGCCTTGAGCTATGCTGT
1 AGCTGAATGAAATCGAACTCGAAGGTCTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGT
8704962 AA
66 AA
8704964 TAGGCTGGGA
Statistics
Matches: 131, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
83 107 0.82
84 1 0.01
85 23 0.18
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (83 bp):
AGCTGAATGAAATCGAACTCGAAGGTCTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGT
AAATTTAATATGCCCTTG
Found at i:8707232 original size:28 final size:30
Alignment explanation
Indices: 8707174--8707232 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
8707164 CCATATAAAA
*
8707174 AGAAAGTTCAAAAAATAAGTTCCAAATATG
1 AGAAAGTTCAAAAAATAAGTTCCAAACATG
8707204 AGAAAGTTCAAAAACAT-A-TT-CAAACATG
1 AGAAAGTTCAAAAA-ATAAGTTCCAAACATG
8707232 A
1 A
8707233 TGACGTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 8 0.30
29 2 0.07
30 15 0.56
31 2 0.07
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.22
Consensus pattern (30 bp):
AGAAAGTTCAAAAAATAAGTTCCAAACATG
Found at i:8707932 original size:174 final size:174
Alignment explanation
Indices: 8707636--8707989 Score: 672
Period size: 174 Copynumber: 2.0 Consensus size: 174
8707626 GCCTAGGTAC
*
8707636 ATTGGATGCTAAGTAGACTAAAGGCAATTTAAGAGTTGGATGGACAATTCACGTCATTCAGATTG
1 ATTGGGTGCTAAGTAGACTAAAGGCAATTTAAGAGTTGGATGGACAATTCACGTCATTCAGATTG
8707701 ATCATCCATTTTGAACATGTTCCAAGCATCTTTGGGTGATGAAGTCTTCTTAACATTTAATCCCC
66 ATCATCCATTTTGAACATGTTCCAAGCATCTTTGGGTGATGAAGTCTTCTTAACATTTAATCCCC
8707766 TATCTCTTATATTTCCAACTCATTTTGAATCATATCAATCTGAT
131 TATCTCTTATATTTCCAACTCATTTTGAATCATATCAATCTGAT
* *
8707810 ATTGGGTGCTAAGTAGACTAAAGGCAATTTAAGAGTTGGATGGACAGTTTACGTCATTCAGATTG
1 ATTGGGTGCTAAGTAGACTAAAGGCAATTTAAGAGTTGGATGGACAATTCACGTCATTCAGATTG
8707875 ATCATCCATTTTGAACATGTTCCAAGCATCTTTGGGTGATGAAGTCTTCTTAACATTTAATCCCC
66 ATCATCCATTTTGAACATGTTCCAAGCATCTTTGGGTGATGAAGTCTTCTTAACATTTAATCCCC
*
8707940 TATCTCTTATATTTCCAGCTCATTTTGAATCATATCAATCTGAT
131 TATCTCTTATATTTCCAACTCATTTTGAATCATATCAATCTGAT
8707984 ATTGGG
1 ATTGGG
8707990 AGCCCAAGAT
Statistics
Matches: 176, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 176 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (174 bp):
ATTGGGTGCTAAGTAGACTAAAGGCAATTTAAGAGTTGGATGGACAATTCACGTCATTCAGATTG
ATCATCCATTTTGAACATGTTCCAAGCATCTTTGGGTGATGAAGTCTTCTTAACATTTAATCCCC
TATCTCTTATATTTCCAACTCATTTTGAATCATATCAATCTGAT
Found at i:8715541 original size:19 final size:19
Alignment explanation
Indices: 8715503--8715541 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
8715493 TTTTAAGTCG
*
8715503 TGAAAATTAAAATTTAAAT
1 TGAAAATTAAAAATTAAAT
* *
8715522 TGAAATTTAAAAATTCAAT
1 TGAAAATTAAAAATTAAAT
8715541 T
1 T
8715542 TGAATTACTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (19 bp):
TGAAAATTAAAAATTAAAT
Found at i:8715742 original size:25 final size:25
Alignment explanation
Indices: 8715679--8715749 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
8715669 GTAAAAAATG
* *
8715679 ATAATAAAATAATAGTAAAAATGAA
1 ATAATAAAATAAAAGTAAAAATCAA
*
8715704 ATAATAAAAAAAAAG-AAAAATCAA
1 ATAATAAAATAAAAGTAAAAATCAA
*
8715728 CA-AATAAAATTAAAAATAAAAA
1 -ATAATAAAA-TAAAAGTAAAAA
8715750 CATACTAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
24 15 0.39
25 18 0.47
26 5 0.13
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.18
Consensus pattern (25 bp):
ATAATAAAATAAAAGTAAAAATCAA
Found at i:8715766 original size:7 final size:6
Alignment explanation
Indices: 8715605--8715749 Score: 66
Period size: 6 Copynumber: 22.8 Consensus size: 6
8715595 TGTTATATTA
* *
8715605 AAAAAT AAAAAT AAAGAA- AAAAAT AAAAAT ATCAAAT ATCAAAT AAAAGGA-
1 AAAAAT AAAAAT AAA-AAT AAAAAT AAAAAT A-AAAAT A-AAAAT AAAA--AT
* * * *
8715656 AAAAAT AAAACAAGT AAAAAAT GATAAT -AAAAT AATAGT AAAAAT GAAATAAT
1 AAAAAT -AAA-AA-T -AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAA-AAT
* *
8715709 -AAAA- AAAAAG AAAAAT CAACAAAT AAAATT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT -AA-AAAT AAAAAT AAAAAT AAAAA
8715750 CATACTAAAA
Statistics
Matches: 111, Mismatches: 12, Indels: 32
0.72 0.08 0.21
Matches are distributed among these distances:
5 13 0.12
6 52 0.47
7 29 0.26
8 12 0.11
9 5 0.05
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:8715778 original size:22 final size:23
Alignment explanation
Indices: 8715732--8715786 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
8715722 AATCAACAAA
*
8715732 TAAAATTAAAAATAAAAACATAC
1 TAAAATTAAAAAGAAAAACATAC
8715755 TAAAATTAAAAAGGAAAAA-A-AC
1 TAAAATTAAAAA-GAAAAACATAC
8715777 TAAAA-TAAAA
1 TAAAATTAAAA
8715787 TAACAAAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 5 0.17
22 7 0.23
23 13 0.43
24 5 0.17
ACGTcount: A:0.73, C:0.05, G:0.04, T:0.18
Consensus pattern (23 bp):
TAAAATTAAAAAGAAAAACATAC
Found at i:8718095 original size:19 final size:18
Alignment explanation
Indices: 8718057--8718129 Score: 56
Period size: 18 Copynumber: 3.7 Consensus size: 18
8718047 AATTTGATTC
8718057 AAAAATAATATATTTATT
1 AAAAATAATATATTTATT
* *
8718075 AAAAATATTATTTTTATTT
1 AAAAATAATATATTTA-TT
* *
8718094 AATTAATATATAAATTTAATT
1 AA-AAATA-ATATATTT-ATT
8718115 GAAAAAATAATATAT
1 --AAAAATAATATAT
8718130 AGAGGGATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
18 14 0.34
19 4 0.10
20 4 0.10
21 12 0.29
22 5 0.12
23 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (18 bp):
AAAAATAATATATTTATT
Found at i:8720600 original size:54 final size:54
Alignment explanation
Indices: 8720512--8720734 Score: 367
Period size: 54 Copynumber: 4.1 Consensus size: 54
8720502 AAAGAGCTTC
8720512 AATG-TTTGCGAACATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCA
1 AATGTTTTGCGAACATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCA
* * *
8720565 AATATTTTGCGAACATCTGGGCAGAAGCCATAGGAAATGATGAATGTGTTGTCA
1 AATGTTTTGCGAACATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCA
* * *
8720619 AATGTTTTGCAAACATTTGGGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCA
1 AATGTTTTGCGAACATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCA
* *
8720673 AATGTTTCGCGAACATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTTGTTA
1 AATGTTTTGCGAACATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCA
8720727 AATGTTTT
1 AATGTTTT
8720735 ATGAACCAAT
Statistics
Matches: 154, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
53 3 0.02
54 151 0.98
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.26
Consensus pattern (54 bp):
AATGTTTTGCGAACATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCA
Found at i:8721721 original size:123 final size:123
Alignment explanation
Indices: 8721539--8722164 Score: 807
Period size: 123 Copynumber: 5.1 Consensus size: 123
8721529 CACTCGAGGG
* * *
8721539 ATCAACATTTCCAGACAGAGTTTGTAATAAGAAGAACTCCTCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAAACAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
*
8721604 GTCTGAAGAACTTATTCAACCTTTTGCTTGACTCTATCGCAGAAGAAGATAGAGCAGT
66 GTCTGAAGAACTTATTCAACCTTTTGCTTGACTCTATCGCAGAAGAAGATAGAGCAGC
* * *
8721662 A-GAACCATTTCCAAACAGAGTTCGTAATAAGAAGAACTCCTTTGAAGAGGAAGAAGAAGTTCAT
1 ATCAA-CATTTCCAAACAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
8721726 AGTCTGAAGAACTTATTCAACCTTTTGCTTGACTCTATCGCAGAAGAAGATAGAGCAGC
65 AGTCTGAAGAACTTATTCAACCTTTTGCTTGACTCTATCGCAGAAGAAGATAGAGCAGC
*
8721785 AT-AACCATTTCCAGACAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
1 ATCAA-CATTTCCAAACAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
* * * *
8721849 AGTCTGAAGAACTTATTCAACCTTTTGCTCGATTCTATTGCAGAAGGAGATAGAGCAGC
65 AGTCTGAAGAACTTATTCAACCTTTTGCTTGACTCTATCGCAGAAGAAGATAGAGCAGC
* * * * *
8721908 ATCAACGTTTCCAGAA-GGAATTCGTAATAAGAAGAATTCATCTGAAGAGGAAGAAAAAGTTCAT
1 ATCAACATTTCCA-AACAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
* * * * * * * *
8721972 AATATGAAGAACTTATTCAACATTTTGCATGATTCTATCACAAAATG-AGATAGACCAGC
65 AGTCTGAAGAACTTATTCAACCTTTTGCTTGACTCTATCGCAGAA-GAAGATAGAGCAGC
* * *
8722031 ATCAACATTTCCAGAA-GGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAATAAGAATTTCAT
1 ATCAACATTTCCA-AACAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
* * * * * * * * * * *
8722095 AATCTTAAGAACTTGTTCAACC-TTAGCTCGATTC-ATCGTAAAAGGAGATAGATCATC
65 AGTCTGAAGAACTTATTCAACCTTTTGCTTGACTCTATCGCAGAAGAAGATAGAGCAGC
8722152 ATCAACATTTCCA
1 ATCAACATTTCCA
8722165 TCTTAATCAA
Statistics
Matches: 453, Mismatches: 44, Indels: 14
0.89 0.09 0.03
Matches are distributed among these distances:
120 1 0.00
121 30 0.07
122 11 0.02
123 407 0.90
124 4 0.01
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (123 bp):
ATCAACATTTCCAAACAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
GTCTGAAGAACTTATTCAACCTTTTGCTTGACTCTATCGCAGAAGAAGATAGAGCAGC
Found at i:8722311 original size:8 final size:8
Alignment explanation
Indices: 8722298--8722329 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
8722288 TTATTTATTT
8722298 TTATTATA
1 TTATTATA
8722306 TTATTATA
1 TTATTATA
8722314 TTATTATTA
1 TTATTA-TA
8722323 TTATTAT
1 TTATTAT
8722330 TAAAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
TTATTATA
Found at i:8722343 original size:3 final size:3
Alignment explanation
Indices: 8722292--8722331 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
8722282 CATTTGTTAT
*
8722292 TTA TTT TTA TTA -TA TTA TTA -TA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8722332 AAATAATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8733692 original size:222 final size:222
Alignment explanation
Indices: 8733301--8733744 Score: 872
Period size: 222 Copynumber: 2.0 Consensus size: 222
8733291 AGCTAGAGAA
8733301 AACATTTTTGCACAAAAGAACCTGCAATAACATGAATGTTACTACCCAAAGGAAAAACACCAACA
1 AACATTTTTGCACAAAAGAACCTGCAATAACATGAATGTTACTACCCAAAGGAAAAACACCAACA
8733366 CTCCTAATATAGAATGCCTTTTCCATTAAAGAACACCAAGGATCCTAAAATAATTAATAAATACC
66 CTCCTAATATAGAATGCCTTTTCCATTAAAGAACACCAAGGATCCTAAAATAATTAATAAATACC
8733431 AGAATTGACTAAAATGAAACAAAAACTAAAATGAAAAATCAGTTCTAACACAATCATTTCATAAA
131 AGAATTGACTAAAATGAAACAAAAACTAAAATGAAAAATCAGTTCTAACACAATCATTTCATAAA
8733496 ACAATTAAAACTCGAACTTGCTTTTTT
196 ACAATTAAAACTCGAACTTGCTTTTTT
8733523 AACATTTTTGCACAAAAGAACCTGCAATAACATGAATGTTACTACCC-AAGGAAAAACACCAACA
1 AACATTTTTGCACAAAAGAACCTGCAATAACATGAATGTTACTACCCAAAGGAAAAACACCAACA
8733587 CTCCTAATATAGAATGCCTTTTCCATTAAAGAACACCAAGGATCCTAAAATAATTAATAAATACC
66 CTCCTAATATAGAATGCCTTTTCCATTAAAGAACACCAAGGATCCTAAAATAATTAATAAATACC
8733652 AGAATTGACTAAAATGAAACAAACAACTAAAATGAAAAATCAGTTCTAACACAATCATTTCATAA
131 AGAATTGACTAAAATGAAACAAA-AACTAAAATGAAAAATCAGTTCTAACACAATCATTTCATAA
8733717 AACAATTAAAACTCGAACTTGCTTTTTT
195 AACAATTAAAACTCGAACTTGCTTTTTT
8733745 TGAAAATTCC
Statistics
Matches: 221, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
221 105 0.48
222 116 0.52
ACGTcount: A:0.47, C:0.20, G:0.09, T:0.25
Consensus pattern (222 bp):
AACATTTTTGCACAAAAGAACCTGCAATAACATGAATGTTACTACCCAAAGGAAAAACACCAACA
CTCCTAATATAGAATGCCTTTTCCATTAAAGAACACCAAGGATCCTAAAATAATTAATAAATACC
AGAATTGACTAAAATGAAACAAAAACTAAAATGAAAAATCAGTTCTAACACAATCATTTCATAAA
ACAATTAAAACTCGAACTTGCTTTTTT
Found at i:8735391 original size:28 final size:28
Alignment explanation
Indices: 8735359--8735425 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
8735349 CTACAGTTAT
8735359 TTTCAAGCACTGACTCAACGTTATAATG
1 TTTCAAGCACTGACTCAACGTTATAATG
8735387 TTTCAAGCACTGACTCAACGTTATAATG
1 TTTCAAGCACTGACTCAACGTTATAATG
*
8735415 TTCCAAGCACT
1 TTTCAAGCACT
8735426 AGCTCGATGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (28 bp):
TTTCAAGCACTGACTCAACGTTATAATG
Found at i:8735507 original size:26 final size:26
Alignment explanation
Indices: 8735478--8735531 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
8735468 TACAACTCAA
8735478 ATGGTGATTGAATCAAATTTTATCAT
1 ATGGTGATTGAATCAAATTTTATCAT
8735504 ATGGTGATTGAATCAAATTTTATCAT
1 ATGGTGATTGAATCAAATTTTATCAT
8735530 AT
1 AT
8735532 CTTAGTTAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (26 bp):
ATGGTGATTGAATCAAATTTTATCAT
Found at i:8738209 original size:22 final size:24
Alignment explanation
Indices: 8738169--8738219 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
8738159 AAGACACACC
8738169 ATAAATATATACATAAAAAATAAT
1 ATAAATATATACATAAAAAATAAT
8738193 -TAAA-ATATA-ATACAAAAATAAT
1 ATAAATATATACATA-AAAAATAAT
8738215 ATAAA
1 ATAAA
8738220 CAGACTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 3 0.12
22 14 0.56
23 8 0.32
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (24 bp):
ATAAATATATACATAAAAAATAAT
Found at i:8738343 original size:29 final size:30
Alignment explanation
Indices: 8738249--8738357 Score: 132
Period size: 29 Copynumber: 3.6 Consensus size: 30
8738239 TCGAAAATAA
*
8738249 TTTATGTAAAATGGAA-TACCTGAAAACTGTT
1 TTTACGTAAAAT-GAATTACCTGAAAACTG-T
* ** *
8738280 TTTATGTAAAATGAATTATATGAAAATTGT
1 TTTACGTAAAATGAATTACCTGAAAACTGT
*
8738310 TTTACGTAAAACGAATTACCT-AAAACTGT
1 TTTACGTAAAATGAATTACCTGAAAACTGT
8738339 TTTACGTAAAATGAATTAC
1 TTTACGTAAAATGAATTAC
8738358 ATTTTCTGGG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 25 0.37
30 21 0.31
31 22 0.32
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (30 bp):
TTTACGTAAAATGAATTACCTGAAAACTGT
Found at i:8738834 original size:19 final size:18
Alignment explanation
Indices: 8738810--8738853 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
8738800 GAGTATATAT
8738810 TAATATAATATTAAAACTA
1 TAATAT-ATATTAAAACTA
*
8738829 TAATAT-TATTAAAATTA
1 TAATATATATTAAAACTA
*
8738846 TATTATAT
1 TAATATAT
8738854 GTATATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 15 0.68
18 1 0.05
19 6 0.27
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
TAATATATATTAAAACTA
Found at i:8738860 original size:50 final size:49
Alignment explanation
Indices: 8738781--8738921 Score: 128
Period size: 50 Copynumber: 2.9 Consensus size: 49
8738771 ATCATATCAT
* * *
8738781 ATATTATTATAATATATATGAGTATATATTAATATAATATTAAAACT-ATA
1 ATATTATTAAAAT-TATATTA-AATATATTAATATAATATTAAAACTAATA
* * *
8738831 ATATTATTAAAATTATATTATATGTATATTAA-AT-ATTTTAATAATTAATA
1 ATATTATTAAAATTATATTA-A-ATATATTAATATAATATTAA-AACTAATA
* * *
8738881 TTTTTATTAAAATTATATTAAAT-TATTAATTTAATATTAAA
1 ATATTATTAAAATTATATTAAATATATTAATATAATATTAAA
8738922 TGCATAAAAT
Statistics
Matches: 74, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
47 6 0.08
48 9 0.12
49 18 0.24
50 41 0.55
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (49 bp):
ATATTATTAAAATTATATTAAATATATTAATATAATATTAAAACTAATA
Found at i:8738906 original size:19 final size:19
Alignment explanation
Indices: 8738884--8738922 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8738874 ATTAATATTT
8738884 TTATTAAAATT-ATATTAAA
1 TTATT-AAATTAATATTAAA
*
8738903 TTATTAATTTAATATTAAA
1 TTATTAAATTAATATTAAA
8738922 T
1 T
8738923 GCATAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTATTAAATTAATATTAAA
Found at i:8741136 original size:228 final size:229
Alignment explanation
Indices: 8740558--8741271 Score: 1325
Period size: 228 Copynumber: 3.1 Consensus size: 229
8740548 GTTATATTGT
* * * *
8740558 AAAGTATCTATCCTTTTTATAAAAGTGTACATACTTATTTCACTGT-GAAAATATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
8740622 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
*
8740687 TAATTTTATGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
8740752 AAAAAATTGAAACATAAATTACATAACTTT-AAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
8740785 AAAGTATATATCATTTTTA-AAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
8740849 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATC-AA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
8740913 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
8740978 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
8741012 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
8741077 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
8741142 TAA-TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
8741206 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
*
8741240 AAAG--TATATCATTTTTATAAAAGTGTCTATAC
1 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
8741272 GTATAAAAGT
Statistics
Matches: 477, Mismatches: 6, Indels: 9
0.97 0.01 0.02
Matches are distributed among these distances:
226 148 0.31
227 118 0.25
228 206 0.43
229 5 0.01
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (229 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
AAAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:8741546 original size:17 final size:19
Alignment explanation
Indices: 8741507--8741549 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
8741497 CAGGTAAAAT
8741507 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
8741527 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
8741544 ATGATA
1 ATGATA
8741550 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:8743771 original size:21 final size:21
Alignment explanation
Indices: 8743747--8743790 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
8743737 AAGACAATCA
8743747 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
8743768 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
8743789 AG
1 AG
8743791 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:8743866 original size:33 final size:33
Alignment explanation
Indices: 8743824--8743889 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
8743814 AAATAGATGG
*
8743824 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
8743857 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
8743890 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:8745703 original size:19 final size:19
Alignment explanation
Indices: 8745679--8745727 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
8745669 AATGTAGGGT
8745679 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
8745698 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
8745717 TATTTTTGTAT
1 TAATTTTGTAT
8745728 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:8746420 original size:199 final size:200
Alignment explanation
Indices: 8745846--8747416 Score: 2868
Period size: 199 Copynumber: 7.9 Consensus size: 200
8745836 CAATATGGCC
**
8745846 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTTAATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
* * *
8745911 CCAAAAGTATAATGTAATATATAATTTTTCAATCTAACAGGTACAAGTTTACCGGTTTTAAGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
*
8745976 GAATATGTCTAAATAATGTGTTGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
8746041 TGGAA
196 TGGAA
*
8746046 AACAGGGTGAAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
8746111 CCAAAAGTATAATGTAATTTGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
8746176 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
8746241 TGGAA
196 TGGAA
* *
8746246 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
8746310 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTATCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
8746375 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
8746440 TGGAA
196 TGGAA
*
8746445 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
8746510 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
8746575 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
8746640 TGGAA
196 TGGAA
* *
8746645 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
8746709 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
8746774 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATA-TTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
8746838 TGGAA
196 TGGAA
*
8746843 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
8746908 CCAGAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
8746973 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
8747038 TGGAA
196 TGGAA
* * *
8747043 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTATCGATCCCAAAATCATCG-AAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
8747107 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCAGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
8747172 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
8747237 TGGAA
196 TGGAA
* *
8747242 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
8747306 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGATTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
*
8747371 GAATATGTCTAAATAATGTGTCGATACGT--TTTAGTTTGTGTCGATA
131 GAATATGTCTAAATAATGTGTCGACAC-TAATTTAGTTTGTGTCGATA
8747417 CTAATTTAAA
Statistics
Matches: 1333, Mismatches: 34, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
198 98 0.07
199 708 0.53
200 527 0.40
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
TGGAA
Found at i:8746585 original size:399 final size:399
Alignment explanation
Indices: 8745846--8747416 Score: 2916
Period size: 399 Copynumber: 3.9 Consensus size: 399
8745836 CAATATGGCC
** * *
8745846 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTTAATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
* * *
8745911 CCAAAAGTATAATGTAATATATAATTTTTCAATCTAACAGGTACAAGTTTACCGGTTTTAAGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
*
8745976 GAATATGTCTAAATAATGTGTTGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
*
8746041 TGGAAAACAGGGTGAAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
195 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
*
8746106 GAAAACCAAAAGTATAATGTAATTTGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTA
260 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTA
8746171 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGA
325 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGA
8746236 ATGAATGGAA
390 ATGAATGGAA
8746246 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
8746311 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTATCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
8746376 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
*
8746441 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
196 GGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
8746506 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
261 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
8746571 GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAA
326 GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAA
8746636 TGAATGGAA
391 TGAATGGAA
8746645 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
8746710 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
8746775 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATA-TTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
*
8746839 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
196 GGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
*
8746904 AAAACCAGAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
261 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
8746969 GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAA
326 GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAA
8747034 TGAATGGAA
391 TGAATGGAA
*
8747043 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTATCGATCCCAAAATCATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
8747108 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCAGTACAAGTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
8747173 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
*
8747238 GGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
* *
8747303 -AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGATTTTAT
261 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
*
8747367 GAGAGAATATGTCTAAATAATGTGTCGATACGT--TTTAGTTTGTGTCGATA
326 GAGAGAATATGTCTAAATAATGTGTCGACAC-TAATTTAGTTTGTGTCGATA
8747417 CTAATTTAAA
Statistics
Matches: 1147, Mismatches: 22, Indels: 7
0.98 0.02 0.01
Matches are distributed among these distances:
397 17 0.01
398 486 0.42
399 586 0.51
400 58 0.05
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (399 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
GGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAA
TGAATGGAA
Found at i:8748902 original size:18 final size:18
Alignment explanation
Indices: 8748879--8748940 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
8748869 AGCGGTCGCA
8748879 GAAGATGAAACTGACGAT
1 GAAGATGAAACTGACGAT
* *
8748897 GAAGATGACGA-TGATGAT
1 GAAGATGA-AACTGACGAT
* * *
8748915 GACGATGAAGCTGGCGAT
1 GAAGATGAAACTGACGAT
8748933 GAAGATGA
1 GAAGATGA
8748941 TGACGATGAT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
18 33 0.97
19 1 0.03
ACGTcount: A:0.39, C:0.10, G:0.34, T:0.18
Consensus pattern (18 bp):
GAAGATGAAACTGACGAT
Found at i:8748910 original size:24 final size:23
Alignment explanation
Indices: 8748882--8748970 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 23
8748872 GGTCGCAGAA
8748882 GATGAAACTGACGATGAAGATGAC
1 GATGAAA-TGACGATGAAGATGAC
* * *
8748906 GATGATGATGACGATGAAGCTGGC
1 GATGA-AATGACGATGAAGATGAC
* * *
8748930 GATG-AA-GATGATGACGATGAT
1 GATGAAATGACGATGAAGATGAC
*
8748951 GATG--ATGATGATGAAGATGA
1 GATGAAATGACGATGAAGATGA
8748971 TGATCCAAAC
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.02
21 27 0.51
22 1 0.02
24 23 0.43
25 1 0.02
ACGTcount: A:0.37, C:0.08, G:0.34, T:0.21
Consensus pattern (23 bp):
GATGAAATGACGATGAAGATGAC
Found at i:8748914 original size:3 final size:3
Alignment explanation
Indices: 8748894--8748974 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
8748884 TGAAACTGAC
* * * * * ** *
8748894 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
8748942 GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
8748975 CCAAACAAGT
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:8748933 original size:36 final size:36
Alignment explanation
Indices: 8748882--8748958 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
8748872 GGTCGCAGAA
*
8748882 GATGAAACTGACGATGAAGATGACGATGATGATGAC
1 GATGAAACTGACGATGAAGATGACGACGATGATGAC
* * * *
8748918 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAACTGACGATGAAGATGACGACGATGATGAC
8748954 GATGA
1 GATGA
8748959 TGATGAAGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.09, G:0.34, T:0.21
Consensus pattern (36 bp):
GATGAAACTGACGATGAAGATGACGACGATGATGAC
Found at i:8748974 original size:12 final size:12
Alignment explanation
Indices: 8748890--8748970 Score: 81
Period size: 12 Copynumber: 6.8 Consensus size: 12
8748880 AAGATGAAAC
8748890 TGACGATGAAGA
1 TGACGATGAAGA
*
8748902 TGACGATGATGA
1 TGACGATGAAGA
*
8748914 TGACGATGAAGC
1 TGACGATGAAGA
*
8748926 TGGCGATGAAGA
1 TGACGATGAAGA
* * *
8748938 TGATGACGATGA
1 TGACGATGAAGA
* *
8748950 TGATGATGATGA
1 TGACGATGAAGA
*
8748962 TGAAGATGA
1 TGACGATGA
8748971 TGATCCAAAC
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 58 1.00
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.22
Consensus pattern (12 bp):
TGACGATGAAGA
Found at i:8750750 original size:183 final size:182
Alignment explanation
Indices: 8750442--8750967 Score: 865
Period size: 183 Copynumber: 2.9 Consensus size: 182
8750432 CTTTCAACAT
** * * *
8750442 ATTATAATAAAATAGGTAAATTTGTAATGCT-ATCGGTATAAATATACCGGTTTTATGCGCGAAT
1 ATTATAATGTAATAGATAAATTTGTAAT-ATAACCGGTATAAATATACCGGTTTTATGCGCGAAT
* *
8750506 AGGTCTACAACCTATATCGACACTTTTTAATCTTGTGTCGGTACTTTATGTCCAGATTGGAAAAA
65 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAA
* *
8750571 AAATGTGTCGATACATTGTTAAAAAGTGTCGACATTTACACATCGGAACCCATA
130 AAATGTGTCGATACATT-TAAAAAAGTGTCGACATTTACACATCGGAACCCAGA
8750625 ATTATAATGTAATAGATAAATTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAAATTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
*
8750690 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
*
8750755 AATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGA
131 AATGTGTCGATAC-ATTTAAAAAAGTGTCGACATTTACACATCGGAACCCAGA
* * * *
8750808 TTTATAATGTAATAGATAATTTTGTAATATAACTGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAAATTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
*
8750873 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
8750938 AATGTGTCGATACCATTTAAAAAAGTGTCG
131 AATGTGTCGATA-CATTTAAAAAAGTGTCG
8750968 GTAATTTTAA
Statistics
Matches: 322, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
182 1 0.00
183 317 0.98
184 4 0.01
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (182 bp):
ATTATAATGTAATAGATAAATTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
AATGTGTCGATACATTTAAAAAAGTGTCGACATTTACACATCGGAACCCAGA
Found at i:8751665 original size:25 final size:25
Alignment explanation
Indices: 8751637--8751701 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
8751627 TTATCATTAA
8751637 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
8751662 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
8751687 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
8751702 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:8752075 original size:23 final size:23
Alignment explanation
Indices: 8752044--8752116 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
8752034 ATAGGTAAAC
*
8752044 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
8752067 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
8752090 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
8752113 ATAT
1 ATAT
8752117 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:8752561 original size:18 final size:18
Alignment explanation
Indices: 8752540--8752576 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8752530 GTAATTGGAG
8752540 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
8752558 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
8752576 T
1 T
8752577 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:8752584 original size:24 final size:24
Alignment explanation
Indices: 8752532--8752578 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
8752522 TTTCATATGT
* *
8752532 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
8752556 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
8752579 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:8752998 original size:39 final size:39
Alignment explanation
Indices: 8752955--8753041 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
8752945 TCCGATGCTC
*
8752955 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
8752994 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
8753033 ATCAAAATC
1 ATCAAAATC
8753042 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:8753494 original size:23 final size:23
Alignment explanation
Indices: 8753463--8753535 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
8753453 ATAGGTAAAA
*
8753463 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
8753486 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
8753509 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
8753532 ATAT
1 ATAT
8753536 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:8753923 original size:23 final size:23
Alignment explanation
Indices: 8753892--8753964 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
8753882 ATAGGTAAAA
*
8753892 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
8753915 ATATAATGTAATAGATATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
8753938 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
8753961 ATAT
1 ATAT
8753965 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:8754059 original size:429 final size:430
Alignment explanation
Indices: 8753260--8754314 Score: 2031
Period size: 429 Copynumber: 2.5 Consensus size: 430
8753250 GTTAATGTTG
*
8753260 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
*
8753325 TGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
8753390 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
*
8753455 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGATATCGTTTATATAATGTAA
8753520 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTAT
261 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTAT
*
8753585 AGAAAATATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 AGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
8753650 GTCTAATGATTTATTTTTTACG-TACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
8753689 TTAAATTAAAAGTTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
8753754 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
8753819 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
8753884 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGATATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGATATCGTTTATATAATGTAA
* *
8753949 TAGGTAGTGGTTATATTGTAAAGTGTCTATCTTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTAT
*
8754014 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 AGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
8754079 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
8754119 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
8754184 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
8754249 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
8754314 A
196 A
8754315 TAATGTAATA
Statistics
Matches: 616, Mismatches: 9, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
429 404 0.66
430 212 0.34
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (430 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGATATCGTTTATATAATGTAA
TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTAT
AGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:8754169 original size:30 final size:29
Alignment explanation
Indices: 8754110--8754176 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
8754100 GTTACGATAT
* *
8754110 ATATTATTATTAAATTAAAAATTCTAAATA
1 ATATT-TTATAAAATTAAAAAATCTAAATA
8754140 ATATTTTATAAAATATCAAAAAATC-AAATA
1 ATATTTTATAAAAT-T-AAAAAATCTAAATA
*
8754170 ATTTTTT
1 ATATTTT
8754177 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATTTTATAAAATTAAAAAATCTAAATA
Found at i:8755813 original size:2 final size:2
Alignment explanation
Indices: 8755806--8755834 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8755796 ACTTGTTAAA
8755806 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8755835 AGGACAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8757769 original size:14 final size:15
Alignment explanation
Indices: 8757747--8757782 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
8757737 CGGATTTCCT
*
8757747 AAAAGTATA-TTTAA
1 AAAAATATATTTTAA
8757761 AAAAATATATTTTAA
1 AAAAATATATTTTAA
8757776 AAAAATA
1 AAAAATA
8757783 AAAAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AAAAATATATTTTAA
Found at i:8767455 original size:14 final size:15
Alignment explanation
Indices: 8767426--8767455 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8767416 CTTCTTCATG
8767426 TACTTCACCTTACTA
1 TACTTCACCTTACTA
8767441 TACTTCACC-TACTA
1 TACTTCACCTTACTA
8767455 T
1 T
8767456 GGCATGATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (15 bp):
TACTTCACCTTACTA
Found at i:8780368 original size:17 final size:17
Alignment explanation
Indices: 8780323--8780424 Score: 80
Period size: 17 Copynumber: 5.8 Consensus size: 17
8780313 AATATGTGTT
*
8780323 TGATAACTGTAAAACATC
1 TGATAACTGT-AAATATC
** *
8780341 TGATATTTGTAAATATT
1 TGATAACTGTAAATATC
8780358 TGATAACTGT-AATCATC
1 TGATAACTGTAAAT-ATC
* *
8780375 TGATATATATATAAATATC
1 TGATA-A-CTGTAAATATC
**
8780394 TGATAACTAAAAATCATC
1 TGATAACTGTAAAT-ATC
8780412 TGATAACTGTAAA
1 TGATAACTGTAAA
8780425 CATTTAGAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
16 3 0.05
17 26 0.39
18 24 0.36
19 10 0.15
20 3 0.05
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (17 bp):
TGATAACTGTAAATATC
Found at i:8780398 original size:36 final size:34
Alignment explanation
Indices: 8780323--8780416 Score: 107
Period size: 36 Copynumber: 2.6 Consensus size: 34
8780313 AATATGTGTT
* * *
8780323 TGATAACTGTAAAACATCTGATATTTGTAAATATT
1 TGATAACTGT-AATCATCTGATATTTATAAATATC
8780358 TGATAACTGTAATCATCTGATATATATATAAATATC
1 TGATAACTGTAATCATCTGATAT-T-TATAAATATC
**
8780394 TGATAACTAAAAATCATCTGATA
1 TGATAACT-GTAATCATCTGATA
8780417 ACTGTAAACA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
34 12 0.24
35 11 0.22
36 16 0.31
37 12 0.24
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.37
Consensus pattern (34 bp):
TGATAACTGTAATCATCTGATATTTATAAATATC
Found at i:8780414 original size:18 final size:20
Alignment explanation
Indices: 8780368--8780419 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 20
8780358 TGATAACTGT
8780368 AATCATCTGATATA-TATATA
1 AATCATCTGATA-ACTATATA
8780388 AAT-ATCTGATAACTA-A-A
1 AATCATCTGATAACTATATA
8780405 AATCATCTGATAACT
1 AATCATCTGATAACT
8780420 GTAAACATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.13
18 13 0.43
19 10 0.33
20 3 0.10
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.35
Consensus pattern (20 bp):
AATCATCTGATAACTATATA
Found at i:8785773 original size:39 final size:38
Alignment explanation
Indices: 8785714--8785796 Score: 121
Period size: 39 Copynumber: 2.2 Consensus size: 38
8785704 GAGAAACATT
*
8785714 AAAAAAATTCTGGTTCGAATAAGTGTTCGAACAAAACA
1 AAAAAAATTCTAGTTCGAATAAGTGTTCGAACAAAACA
* * *
8785752 AAAAAAACTTCTAGTTTGAATAAGTGTTTGAACATAACA
1 AAAAAAA-TTCTAGTTCGAATAAGTGTTCGAACAAAACA
8785791 AAAAAA
1 AAAAAA
8785797 CAACAAAGAC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 7 0.17
39 33 0.82
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.25
Consensus pattern (38 bp):
AAAAAAATTCTAGTTCGAATAAGTGTTCGAACAAAACA
Found at i:8792143 original size:20 final size:20
Alignment explanation
Indices: 8792110--8792154 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
8792100 TCTTAAGGAA
**
8792110 CATTTAGGTTCATATAGA-TG
1 CATTTAGGAGCATATA-ATTG
8792130 CATTTAGGAGCATATAATTG
1 CATTTAGGAGCATATAATTG
8792150 CATTT
1 CATTT
8792155 TGTGGATTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (20 bp):
CATTTAGGAGCATATAATTG
Found at i:8796147 original size:31 final size:31
Alignment explanation
Indices: 8796105--8796163 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
8796095 GCCAGGGAAA
* *
8796105 GAACAAGTTCATGCATGATGGTGGCTACTAT
1 GAACAAATTCATGCACGATGGTGGCTACTAT
8796136 GAACAAATTCATGCACGATGGTGGCTAC
1 GAACAAATTCATGCACGATGGTGGCTAC
8796164 CGTGATTAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (31 bp):
GAACAAATTCATGCACGATGGTGGCTACTAT
Found at i:8801220 original size:12 final size:13
Alignment explanation
Indices: 8801196--8801227 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
8801186 TCTTGCATTC
8801196 TTTATTT-ATTTA
1 TTTATTTAATTTA
8801208 TTT-TTTAATTTA
1 TTTATTTAATTTA
8801220 TTTATTTA
1 TTTATTTA
8801228 CTTTGTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 11 0.61
13 4 0.22
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTATTTAATTTA
Found at i:8806997 original size:30 final size:30
Alignment explanation
Indices: 8806963--8807023 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
8806953 CAACTCTTGC
8806963 ATTTGTTTATTTATTCTCTTAACTCAATCG
1 ATTTGTTTATTTATTCTCTTAACTCAATCG
8806993 ATTTGTTTATTTATTCTCTTAACTCAATCG
1 ATTTGTTTATTTATTCTCTTAACTCAATCG
8807023 A
1 A
8807024 AATCATTCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.16, G:0.07, T:0.52
Consensus pattern (30 bp):
ATTTGTTTATTTATTCTCTTAACTCAATCG
Found at i:8809438 original size:33 final size:33
Alignment explanation
Indices: 8809399--8809494 Score: 174
Period size: 33 Copynumber: 2.9 Consensus size: 33
8809389 TAGTGCTATC
8809399 CCGTATGACACATAAGGTCGTGTCCACCATAAT
1 CCGTATGACACATAAGGTCGTGTCCACCATAAT
*
8809432 CTGTATGACACATAAGGTCGTGTCCACCATAAT
1 CCGTATGACACATAAGGTCGTGTCCACCATAAT
*
8809465 CCGTATGACATATAAGGTCGTGTCCACCAT
1 CCGTATGACACATAAGGTCGTGTCCACCAT
8809495 CTGTACTAAG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (33 bp):
CCGTATGACACATAAGGTCGTGTCCACCATAAT
Found at i:8813282 original size:15 final size:15
Alignment explanation
Indices: 8813262--8813291 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8813252 ACTATTTGTT
8813262 ACAATATAACAATCC
1 ACAATATAACAATCC
8813277 ACAATATAACAATCC
1 ACAATATAACAATCC
8813292 GGGACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (15 bp):
ACAATATAACAATCC
Found at i:8814324 original size:22 final size:22
Alignment explanation
Indices: 8814298--8814350 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
8814288 CTTGAGATCG
8814298 ACTCGA-TCAAAGCTCGATAAAT
1 ACTCGACTC-AAGCTCGATAAAT
8814320 ACTCGACTCAAGCTCGATAAAT
1 ACTCGACTCAAGCTCGATAAAT
8814342 ACTCGACTC
1 ACTCGACTC
8814351 TAGTTCTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 28 0.93
23 2 0.07
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (22 bp):
ACTCGACTCAAGCTCGATAAAT
Found at i:8817722 original size:16 final size:16
Alignment explanation
Indices: 8817701--8817731 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8817691 TGACTTTTGC
8817701 TTAAACTTGTTACCGT
1 TTAAACTTGTTACCGT
8817717 TTAAACTTGTTACCG
1 TTAAACTTGTTACCG
8817732 CTTCATTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (16 bp):
TTAAACTTGTTACCGT
Found at i:8819592 original size:22 final size:22
Alignment explanation
Indices: 8819566--8819618 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
8819556 CTTGAGATCG
8819566 ACTCGA-TCAAAGCTCGATAAAT
1 ACTCGACTC-AAGCTCGATAAAT
8819588 ACTCGACTCAAGCTCGATAAAT
1 ACTCGACTCAAGCTCGATAAAT
8819610 ACTCGACTC
1 ACTCGACTC
8819619 GAATGGAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 28 0.93
23 2 0.07
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (22 bp):
ACTCGACTCAAGCTCGATAAAT
Found at i:8830763 original size:14 final size:15
Alignment explanation
Indices: 8830744--8830780 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
8830734 ATTTGTTCTC
*
8830744 TTATTTTAAATTA-T
1 TTATTTTAAATTAGA
8830758 TTATTTT-AATTAGA
1 TTATTTTAAATTAGA
8830772 TTATTTTAA
1 TTATTTTAA
8830781 TAAATATTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TTATTTTAAATTAGA
Found at i:8830781 original size:14 final size:13
Alignment explanation
Indices: 8830744--8830794 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
8830734 ATTTGTTCTC
*
8830744 TTATTTTAAATTAT
1 TTATTTT-AATTAA
8830758 TTATTTTAATTAGA
1 TTATTTTAATTA-A
8830772 TTATTTTAA-TAA
1 TTATTTTAATTAA
* *
8830784 ATATTCTAATT
1 TTATTTTAATT
8830795 TCTTTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 8 0.25
13 8 0.25
14 16 0.50
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (13 bp):
TTATTTTAATTAA
Found at i:8832644 original size:14 final size:14
Alignment explanation
Indices: 8832626--8832661 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
8832616 TTAAAAATTT
8832626 AATTTTTCACTA-A
1 AATTTTTCACTATA
8832639 ATATTTTTCACTATA
1 A-ATTTTTCACTATA
8832654 AATTTTTC
1 AATTTTTC
8832662 GGTCTAGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 18 0.86
15 2 0.10
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTTTTCACTATA
Found at i:8833007 original size:3 final size:3
Alignment explanation
Indices: 8832999--8833078 Score: 70
Period size: 3 Copynumber: 26.3 Consensus size: 3
8832989 ATGTTATTTA
* * * * * * *
8832999 TAT TAT TAT TAT TAT AAT AAT TAT TAT TAT AAT TAT AAT AAT AAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
8833047 AAT TAT TAT TAT TAT TAT TAA TAT ATAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T
8833079 TAATATTACA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
3 65 0.96
4 3 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (3 bp):
TAT
Done.