Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 55 of 211
Found at i:16668361 original size:25 final size:26
Alignment explanation
Indices: 16668286--16668367 Score: 103
Period size: 26 Copynumber: 3.2 Consensus size: 26
16668276 GCCAACACAC
*
16668286 CAATATCGCAACAAAGCTGCCAGTAA
1 CAATAACGCAACAAAGCTGCCAGTAA
* *
16668312 TAATAACGCAACAAAGCTTCCAGTAA
1 CAATAACGCAACAAAGCTGCCAGTAA
* * *
16668338 CAGTAACG-AGCAAAGCTGCTAGTAA
1 CAATAACGCAACAAAGCTGCCAGTAA
16668363 CAATA
1 CAATA
16668368 TATGTGGCAA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 18 0.38
26 29 0.62
ACGTcount: A:0.44, C:0.23, G:0.16, T:0.17
Consensus pattern (26 bp):
CAATAACGCAACAAAGCTGCCAGTAA
Found at i:16668575 original size:27 final size:27
Alignment explanation
Indices: 16668545--16668736 Score: 221
Period size: 27 Copynumber: 7.1 Consensus size: 27
16668535 TATAACAGTT
*
16668545 ATTTTACCCTAT-GAGGGTATTTCAATC
1 ATTTTACCCT-TCGAGGGTATTTCGATC
16668572 ATTTTACCCTTC-AGGGGTATTTCGATC
1 ATTTTACCCTTCGA-GGGTATTTCGATC
*
16668599 ATTTTACCCTTCGGGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCGATC
* *
16668626 ATTTTACCCTTCGAGGTTATTTTGATC
1 ATTTTACCCTTCGAGGGTATTTCGATC
* * * *
16668653 ATCTTACCCATCGAGGGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTCGATC
* *
16668680 ATTTTACCCATT-GATGGTATTTCGGGT-
1 ATTTTACCC-TTCGAGGGTATTTC-GATC
*
16668707 ATTTTACCCTTCGAGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGATC
16668734 ATT
1 ATT
16668737 AGCCCACAAA
Statistics
Matches: 144, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.05
27 133 0.92
28 4 0.03
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATC
Found at i:16675833 original size:18 final size:18
Alignment explanation
Indices: 16675790--16675839 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
16675780 AAATTTGAGA
*
16675790 ATAAAAAAATAA-AAATC
1 ATAAATAAATAAGAAATC
16675807 ATAAATAAATAAGAAAT-
1 ATAAATAAATAAGAAATC
*
16675824 ATAAATTAAAAAAGAA
1 ATAAA-TAAATAAGAA
16675840 CAAAGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 16 0.55
18 13 0.45
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (18 bp):
ATAAATAAATAAGAAATC
Found at i:16703793 original size:29 final size:29
Alignment explanation
Indices: 16703751--16703809 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
16703741 ACAAAATCAA
16703751 CAGAGATAACTCTATCTGAGATCAATTTT
1 CAGAGATAACTCTATCTGAGATCAATTTT
16703780 CAGAGATAACTCTATCTGAGATCAATTTT
1 CAGAGATAACTCTATCTGAGATCAATTTT
16703809 C
1 C
16703810 TAATAGTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.34
Consensus pattern (29 bp):
CAGAGATAACTCTATCTGAGATCAATTTT
Found at i:16706182 original size:82 final size:81
Alignment explanation
Indices: 16706080--16706334 Score: 219
Period size: 80 Copynumber: 3.1 Consensus size: 81
16706070 AAAATGAAAG
* * * ** *
16706080 TAAAATATGTTCAACGGCAGGAATAAATCCCAAAACAGAATTATTTGATTAAGTCTTCATTTGGA
1 TAAAATCTGTTAAACGGCAGGAATAAATCCCGAAACAGAATTATTCAATTAAGTC-TCATTTGAA
*
16706145 AACAAATCAAGATTGAA
65 AAAAAATCAAGATTGAA
* ** * ** *
16706162 TAAAATCTGTTAAAAGGCAGGAATAAATCTTGTAACAG-ATTATTCAATTATTTCTCGTTTGAAA
1 TAAAATCTGTTAAACGGCAGGAATAAATCCCGAAACAGAATTATTCAATTAAGTCTCATTTGAAA
* *
16706226 AAAAATTAATATTGAA
66 AAAAATCAAGATTGAA
* * * * * *
16706242 TAAAATCTATTAAACGGCGGGAATAAACCCCGAAACAGATTTTATTTAATTTTAA-TACTCGTTT
1 TAAAATCTGTTAAACGGCAGGAATAAATCCCGAAACAGA-ATTATTCAA--TTAAGT-CTCATTT
*
16706306 GGAAAAAAATCAAAGA-TGAAA
62 GAAAAAAAATC-AAGATTG-AA
16706327 TAAAATCT
1 TAAAATCT
16706335 ATTGAACAGC
Statistics
Matches: 137, Mismatches: 29, Indels: 11
0.77 0.16 0.06
Matches are distributed among these distances:
80 52 0.38
81 12 0.09
82 38 0.28
83 1 0.01
84 21 0.15
85 13 0.09
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (81 bp):
TAAAATCTGTTAAACGGCAGGAATAAATCCCGAAACAGAATTATTCAATTAAGTCTCATTTGAAA
AAAAATCAAGATTGAA
Found at i:16706367 original size:85 final size:84
Alignment explanation
Indices: 16706215--16706379 Score: 197
Period size: 85 Copynumber: 2.0 Consensus size: 84
16706205 TCAATTATTT
* * * * **
16706215 CTCGTTTGAAAAAAAATTAATATTGAATAAAATCTATTAAACGGCGGGAATAAACCCCGAAACAG
1 CTCGTTTGAAAAAAAATCAATAATGAATAAAATCTATTAAACAGCGGGAACAAACCCAAAAACAG
* *
16706280 ATTTTATTTAATTTTAATA
66 ATTTAATTAAATTTTAATA
* * * *
16706299 CTCGTTTGGAAAAAAATCAA-AGATGAAATAAAATCTATTGAACAGCGGGAACAAATCCAAAAAT
1 CTCGTTTGAAAAAAAATCAATA-ATG-AATAAAATCTATTAAACAGCGGGAACAAACCCAAAAAC
16706363 AGATTTAATTAAATTTT
64 AGATTTAATTAAATTTT
16706380 TATTTTTATT
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
83 1 0.01
84 20 0.30
85 46 0.69
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.30
Consensus pattern (84 bp):
CTCGTTTGAAAAAAAATCAATAATGAATAAAATCTATTAAACAGCGGGAACAAACCCAAAAACAG
ATTTAATTAAATTTTAATA
Found at i:16706633 original size:32 final size:32
Alignment explanation
Indices: 16706597--16706659 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
16706587 ATTCTAATAG
16706597 TTATTAGAATTAGATCTCTACTTCTTTTATAC
1 TTATTAGAATTAGATCTCTACTTCTTTTATAC
16706629 TTATTAGAATTAGATCTCTACTTCTTTTATA
1 TTATTAGAATTAGATCTCTACTTCTTTTATA
16706660 TTTCTTATGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.29, C:0.14, G:0.06, T:0.51
Consensus pattern (32 bp):
TTATTAGAATTAGATCTCTACTTCTTTTATAC
Found at i:16706658 original size:26 final size:29
Alignment explanation
Indices: 16706588--16706654 Score: 89
Period size: 32 Copynumber: 2.2 Consensus size: 29
16706578 GTACTTTAAA
*
16706588 TTCTAATAGTTATTAGAATTAGATCTCTAC
1 TTCTTATA-TTATTAGAATTAGATCTCTAC
16706618 TTCTTTTATACTTATTAGAATTAGATCTCTAC
1 TTC--TTATA-TTATTAGAATTAGATCTCTAC
16706650 TTCTT
1 TTCTT
16706655 TTATATTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 5 0.15
32 28 0.85
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.49
Consensus pattern (29 bp):
TTCTTATATTATTAGAATTAGATCTCTAC
Found at i:16707454 original size:23 final size:23
Alignment explanation
Indices: 16707428--16707478 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
16707418 TAGCATATTA
*
16707428 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
16707451 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
16707474 AGTAA
1 TGTAA
16707479 GAAAGTAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:16710190 original size:13 final size:13
Alignment explanation
Indices: 16710172--16710196 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16710162 CATATTTGAT
16710172 TAAGTAAATATAG
1 TAAGTAAATATAG
16710185 TAAGTAAATATA
1 TAAGTAAATATA
16710197 CACAAATAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (13 bp):
TAAGTAAATATAG
Found at i:16710620 original size:50 final size:50
Alignment explanation
Indices: 16710522--16710889 Score: 476
Period size: 50 Copynumber: 7.2 Consensus size: 50
16710512 ATGTGAGCCA
* *
16710522 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCC
1 ATGTAAGACCATGTCTTGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCCC
*
16710578 ATGTAATACCATGTCTTGGACATGGCATTGGCACCGAGATGAGAGGTCCC
1 ATGTAAGACCATGTCTTGGACATGGCATTGGCACCGAGATGAGAGGTCCC
16710628 ATGTAAGACCATGTC-TGGTACATGGCATTGGCACCGAGATGAGAGGTCCC
1 ATGTAAGACCATGTCTTGG-ACATGGCATTGGCACCGAGATGAGAGGTCCC
16710678 ATGTAAGACCATGT-TTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
1 ATGTAAGACCATGTCTT-GGACATGGCATTGGCACCGAGATGAGAGGTCCC
* *
16710728 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAGGTCCC
1 ATGTAAGACCATGTCTTGGACATGGCATTGGCACCGAGATGAGAGGTCCC
* *
16710778 ATGTAAGACCATGT-TTGGGACATGGCGTTGGCACCAAGATGAGAGGTGCCC
1 ATGTAAGACCATGTCTT-GGACATGGCATTGGCACCGAGATGAGAGGT-CCC
* * * * * **
16710829 -CGTAAGATCATGT-TTGGGACATGGCATGGGCATCGATATGAGAACTCCC
1 ATGTAAGACCATGTCTT-GGACATGGCATTGGCACCGAGATGAGAGGTCCC
16710878 ATGTAAGACCAT
1 ATGTAAGACCAT
16710890 ATCTGAGATA
Statistics
Matches: 284, Mismatches: 21, Indels: 20
0.87 0.06 0.06
Matches are distributed among these distances:
49 7 0.02
50 236 0.83
51 6 0.02
53 3 0.01
55 1 0.00
56 31 0.11
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (50 bp):
ATGTAAGACCATGTCTTGGACATGGCATTGGCACCGAGATGAGAGGTCCC
Found at i:16710701 original size:100 final size:100
Alignment explanation
Indices: 16710522--16710889 Score: 524
Period size: 100 Copynumber: 3.6 Consensus size: 100
16710512 ATGTGAGCCA
* *
16710522 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAATAC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCCCATGTAAGAC
16710587 CATGTCTT-GGACATGGCATTGGCACCGAGATGAGAGGTCCC
60 CATGT-TTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
*
16710628 ATGTAAGACCATGTCTGGTACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTT
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTT
16710693 TGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
66 TGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
*
16710728 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAGGTCCCATGTAAGACCATGTT
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTT
* *
16710793 TGGGACATGGCGTTGGCACCAAGATGAGAGGTGCCC
66 TGGGACATGGCATTGGCACCGAGATGAGAGGT-CCC
* * * * * * **
16710829 -CGTAAGATCATGTTTGGGACATGGCATGGGCATCGATATGAGAACTCCCATGTAAGACCAT
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCAT
16710890 ATCTGAGATA
Statistics
Matches: 244, Mismatches: 16, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
99 2 0.01
100 203 0.83
101 3 0.01
103 3 0.01
105 1 0.00
106 32 0.13
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (100 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTT
TGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
Found at i:16710749 original size:150 final size:151
Alignment explanation
Indices: 16710522--16710910 Score: 530
Period size: 150 Copynumber: 2.5 Consensus size: 151
16710512 ATGTGAGCCA
* * *
16710522 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAATAC
1 ATGTAAGACCATGTTTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCCCATGTAAGAC
* * *
16710587 CATGTCTTGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGTACATG
60 CATGTCTGGGACATGGCATTGGCACCGAGATAAGAGGTCCCATGTAAGACCATGTCTGGGACATG
*
16710652 GCATTGGCACCGAGATGAGAGGT-CCC
125 GCATTGGCACCAAGATGAGAGGTGCCC
16710678 ATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
1 ATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
* *
16710743 TGGGACATGGCATTGGCACCGAGATAAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTG
66 TGGGACATGGCATTGGCACCGAGATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTG
16710808 GCACCAAGATGAGAGGTGCCC
131 GCACCAAGATGAGAGGTGCCC
* * * * * ** *
16710829 -CGTAAGATCATGTTTGGGACATGGCATGGGCATCGATATGAGAACTCCCATGTAAGACCATATC
1 ATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
* * *
16710893 TGAGATATGACATTGGCA
66 TGGGACATGGCATTGGCA
16710911 GTACAGGAAA
Statistics
Matches: 212, Mismatches: 20, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
150 173 0.82
151 3 0.01
153 3 0.01
155 1 0.00
156 32 0.15
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (151 bp):
ATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
TGGGACATGGCATTGGCACCGAGATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTG
GCACCAAGATGAGAGGTGCCC
Found at i:16712463 original size:23 final size:23
Alignment explanation
Indices: 16712429--16712479 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
16712419 GGGATAGAAA
* *
16712429 TGTAATATCCCGATAATTACTAC
1 TGTAATAACCCGAAAATTACTAC
16712452 TGTAATAACCCGAAAATTACTAC
1 TGTAATAACCCGAAAATTACTAC
*
16712475 AGTAA
1 TGTAA
16712480 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATAACCCGAAAATTACTAC
Found at i:16716227 original size:48 final size:48
Alignment explanation
Indices: 16716167--16716263 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
16716157 GTTTAATTTT
16716167 ACTAAGATCTATTTCATTCATATAGTTTGCATACTTAGGATAATTTGC
1 ACTAAGATCTATTTCATTCATATAGTTTGCATACTTAGGATAATTTGC
16716215 ACTAAGATCTATTTCATTCATATAGTTTGCATACTTAGGATAATTTGC
1 ACTAAGATCTATTTCATTCATATAGTTTGCATACTTAGGATAATTTGC
16716263 A
1 A
16716264 TTAGCGATCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (48 bp):
ACTAAGATCTATTTCATTCATATAGTTTGCATACTTAGGATAATTTGC
Found at i:16720491 original size:23 final size:25
Alignment explanation
Indices: 16720465--16720516 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 25
16720455 AATCATTTAA
*
16720465 TAATAAAATAAT-ACTAAA-AATAT
1 TAATAAAATAATAACTAAATAACAT
*
16720488 TAATAAAATATTAACTAAATAACAT
1 TAATAAAATAATAACTAAATAACAT
16720513 TAAT
1 TAAT
16720517 CTAATTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 11 0.44
24 6 0.24
25 8 0.32
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (25 bp):
TAATAAAATAATAACTAAATAACAT
Found at i:16725204 original size:22 final size:20
Alignment explanation
Indices: 16725179--16725231 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 20
16725169 ATTTATTTAA
*
16725179 TTATTTTTAGGTATTTAGGAAT
1 TTATTTTTA-GTAATTA-GAAT
16725201 TTATTTCTTTAGTAATTAGAAT
1 TTA-TT-TTTAGTAATTAGAAT
16725223 TTAATTTTT
1 TT-ATTTTT
16725232 GCAAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 3 0.11
22 11 0.41
23 9 0.33
24 4 0.15
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.58
Consensus pattern (20 bp):
TTATTTTTAGTAATTAGAAT
Found at i:16725229 original size:23 final size:25
Alignment explanation
Indices: 16725173--16725229 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
16725163 CTTGTTATTT
* *
16725173 ATTTAATTATTTTTAGGTATTTAGGA
1 ATTTAATT-TCTTTAGGTAATTAGGA
16725199 ATTT-ATTTCTTTA-GTAATTA-GA
1 ATTTAATTTCTTTAGGTAATTAGGA
16725221 ATTTAATTT
1 ATTTAATTT
16725230 TTGCAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 6 0.21
23 10 0.36
24 5 0.18
25 3 0.11
26 4 0.14
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.56
Consensus pattern (25 bp):
ATTTAATTTCTTTAGGTAATTAGGA
Found at i:16732919 original size:20 final size:20
Alignment explanation
Indices: 16732893--16732937 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
16732883 ACAAAAACCA
16732893 AAAATTGATTAAAATCAAAT
1 AAAATTGATTAAAATCAAAT
* **
16732913 CAAATTGATTGGAATCAAAT
1 AAAATTGATTAAAATCAAAT
16732933 AAAAT
1 AAAAT
16732938 CAGGTCACAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.07, G:0.09, T:0.29
Consensus pattern (20 bp):
AAAATTGATTAAAATCAAAT
Found at i:16735602 original size:4 final size:4
Alignment explanation
Indices: 16735593--16735638 Score: 92
Period size: 4 Copynumber: 11.5 Consensus size: 4
16735583 ACGCGTTTGT
16735593 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
16735639 AAGTTGGTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:16742923 original size:21 final size:20
Alignment explanation
Indices: 16742881--16742923 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 20
16742871 ACGGCAGTGG
16742881 TTTTTTTTTTTTTTTTGGCAA
1 TTTTTTTTTTTTTTTT-GCAA
16742902 TTTTTTTTATTTTATTTT-CAA
1 TTTTTTTT-TTTT-TTTTGCAA
16742923 T
1 T
16742924 ACCCAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 12 0.60
22 4 0.20
23 4 0.20
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (20 bp):
TTTTTTTTTTTTTTTTGCAA
Found at i:16751399 original size:20 final size:20
Alignment explanation
Indices: 16751362--16751400 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16751352 TAATACAACA
*
16751362 GAACAGAACAAGACAAAACC
1 GAACAGAACAAAACAAAACC
* *
16751382 GAACAGAGCAAAATAAAAC
1 GAACAGAACAAAACAAAAC
16751401 AAATCAAAAT
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:0.62, C:0.21, G:0.15, T:0.03
Consensus pattern (20 bp):
GAACAGAACAAAACAAAACC
Found at i:16753886 original size:10 final size:10
Alignment explanation
Indices: 16753840--16753891 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
16753830 TGTGAATTTG
*
16753840 TCAAAATTGA
1 TCAAAATTAA
16753850 TCAAAATTAA
1 TCAAAATTAA
16753860 TCAAAATTTATTA
1 TCAAAA-TTA--A
16753873 T-AAAATTAA
1 TCAAAATTAA
*
16753882 TTAAAATTAA
1 TCAAAATTAA
16753892 ACATGTTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
9 2 0.05
10 23 0.62
11 6 0.16
12 4 0.11
13 2 0.05
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (10 bp):
TCAAAATTAA
Found at i:16771365 original size:9 final size:9
Alignment explanation
Indices: 16771351--16771444 Score: 100
Period size: 9 Copynumber: 10.4 Consensus size: 9
16771341 TTTGGTTAAA
16771351 AATTAACCG
1 AATTAACCG
16771360 AATTAACCG
1 AATTAACCG
* *
16771369 AATTGACTG
1 AATTAACCG
**
16771378 AATTAACTA
1 AATTAACCG
* *
16771387 AACTACCCG
1 AATTAACCG
16771396 AATTAACCG
1 AATTAACCG
16771405 AATTAACCG
1 AATTAACCG
*
16771414 AATT-ACTCA
1 AATTAAC-CG
*
16771423 AATTACCCG
1 AATTAACCG
16771432 AATTAACCG
1 AATTAACCG
16771441 AATT
1 AATT
16771445 GAATCCCTAC
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
8 2 0.03
9 66 0.96
10 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:16771400 original size:36 final size:36
Alignment explanation
Indices: 16771357--16771446 Score: 137
Period size: 36 Copynumber: 2.5 Consensus size: 36
16771347 TAAAAATTAA
*
16771357 CCGAATTAACCGAATTGACTGAATTAACT-AAACTAC
1 CCGAATTAACCGAATTGACCGAATT-ACTCAAACTAC
* *
16771393 CCGAATTAACCGAATTAACCGAATTACTCAAATTAC
1 CCGAATTAACCGAATTGACCGAATTACTCAAACTAC
16771429 CCGAATTAACCGAATTGA
1 CCGAATTAACCGAATTGA
16771447 ATCCCTACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 3 0.06
36 46 0.94
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.24
Consensus pattern (36 bp):
CCGAATTAACCGAATTGACCGAATTACTCAAACTAC
Found at i:16771495 original size:6 final size:6
Alignment explanation
Indices: 16771484--16771512 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
16771474 ACTTTTAGAC
16771484 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
16771513 AATTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (6 bp):
TTTAGT
Found at i:16771536 original size:20 final size:20
Alignment explanation
Indices: 16771468--16771525 Score: 66
Period size: 18 Copynumber: 3.0 Consensus size: 20
16771458 ATTAAATTAT
* *
16771468 TTTTAGACTTTTAGACTTTAG
1 TTTTAGAATTTTAG-TTTTAG
16771489 TTTTAG--TTTTAGTTTTAG
1 TTTTAGAATTTTAGTTTTAG
*
16771507 TTTTAGAATTTTATTTTTA
1 TTTTAGAATTTTAGTTTTA
16771526 TTTATTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 11 0.33
19 6 0.18
20 10 0.30
21 6 0.18
ACGTcount: A:0.22, C:0.03, G:0.12, T:0.62
Consensus pattern (20 bp):
TTTTAGAATTTTAGTTTTAG
Found at i:16774823 original size:20 final size:20
Alignment explanation
Indices: 16774778--16774826 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
16774768 ATCATGGTAT
*
16774778 TTGCTT-CTTCTTTACTTGC
1 TTGCTTACTTCTTTACTTAC
*
16774797 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTCTTTACTTAC
16774817 TTGCTTACTT
1 TTGCTTACTT
16774827 AAATAACTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.10, C:0.24, G:0.08, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTCTTTACTTAC
Found at i:16775095 original size:50 final size:50
Alignment explanation
Indices: 16775029--16775174 Score: 188
Period size: 50 Copynumber: 2.9 Consensus size: 50
16775019 GATAATGACA
* **
16775029 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
* * * *
16775079 TGCCCATGCCATGTCCCAGACATGGTCTT--ATGAGGAACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG-GG-ACCTCTCATATCAG
*
16775129 TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
16775175 ACCTTAATAA
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
48 3 0.04
49 2 0.02
50 73 0.89
51 2 0.02
52 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
Found at i:16777964 original size:36 final size:35
Alignment explanation
Indices: 16777907--16777975 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
16777897 CTATTATATT
* *
16777907 GCATGAAAACATATCCACATATTTACTATCACATG
1 GCATGAAAACATACCCACATATTCACTATCACATG
* *
16777942 GCATGAATAACATACCCTCATATTCACTTTCACA
1 GCATGAA-AACATACCCACATATTCACTATCACA
16777976 ACGGTCATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 7 0.24
36 22 0.76
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.29
Consensus pattern (35 bp):
GCATGAAAACATACCCACATATTCACTATCACATG
Found at i:16782713 original size:36 final size:35
Alignment explanation
Indices: 16782642--16782713 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 35
16782632 TCTCTATCAT
* *
16782642 ATGGCATGAAAACATATCCACATATTTATTGTCAC
1 ATGGCATCAAAACATATCCACATATTCATTGTCAC
16782677 ATGGCATCAATAACATA-CCATCATATTCACTT-TCAC
1 ATGGCATCAA-AACATATCCA-CATATTCA-TTGTCAC
16782713 A
1 A
16782714 ATGATCATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
35 12 0.38
36 18 0.56
37 2 0.06
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.31
Consensus pattern (35 bp):
ATGGCATCAAAACATATCCACATATTCATTGTCAC
Found at i:16784439 original size:18 final size:18
Alignment explanation
Indices: 16784406--16784458 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
16784396 ATTCACCTAA
*
16784406 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
16784425 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
16784443 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
16784459 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:16786949 original size:41 final size:41
Alignment explanation
Indices: 16786903--16787069 Score: 217
Period size: 41 Copynumber: 4.1 Consensus size: 41
16786893 AAGAATATTG
*
16786903 TTGAATTGCACATACGTGCCCCTGTTTGTACTTCAATACCC
1 TTGAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCC
* * *
16786944 TTGAATTGAACATACGTGCCCCTGTTTGTACTCCGGTACCC
1 TTGAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCC
* * * * *
16786985 CTGAATTGCACATAAGTGCCTCTATTTTTACTTCGATACCC
1 TTGAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCC
* * * *
16787026 CTGAATTGCACATACGTGCCCCTTTTTATACTTCGGTACCC
1 TTGAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCC
16787067 TTG
1 TTG
16787070 GATGTACTTA
Statistics
Matches: 108, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 108 1.00
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.35
Consensus pattern (41 bp):
TTGAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCC
Found at i:16800913 original size:19 final size:18
Alignment explanation
Indices: 16800891--16800953 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 18
16800881 CAAATACAAA
16800891 AAAAATCAAAATAATTTT
1 AAAAATCAAAATAATTTT
16800909 CAAAAATTCAAAACTAATTTT
1 -AAAAA-TCAAAA-TAATTTT
* *
16800930 AGAATTCAAAAT-ATTTAT
1 AAAAATCAAAATAATTT-T
16800948 AAAAAT
1 AAAAAT
16800954 TTCAAAAGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
17 4 0.11
18 6 0.16
19 11 0.30
20 9 0.24
21 7 0.19
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (18 bp):
AAAAATCAAAATAATTTT
Found at i:16800954 original size:19 final size:19
Alignment explanation
Indices: 16800890--16800960 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 19
16800880 ACAAATACAA
*
16800890 AAAAAATCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
16800909 CAAAAATTCAAAACTAATTTT
1 -AAAAATTCAAAA-TAATTTT
*
16800930 -AGAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
16800948 AAAAATTTCAAAA
1 AAAAA-TTCAAAA
16800961 GTTATATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
17 4 0.09
18 2 0.05
19 13 0.30
20 18 0.41
21 7 0.16
ACGTcount: A:0.58, C:0.08, G:0.01, T:0.32
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:16801133 original size:19 final size:19
Alignment explanation
Indices: 16801111--16801167 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
16801101 AAAAAAAGTC
16801111 AAAATAATTTTCAAAAATTA
1 AAAATAATTTT-AAAAATTA
* *
16801131 AAAATTAATTTT-AGAATTC
1 AAAA-TAATTTTAAAAATTA
*
16801150 AAAATATTTTTAAAAATT
1 AAAATAATTTTAAAAATT
16801168 CCAAAATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
18 6 0.19
19 14 0.45
20 4 0.13
21 7 0.23
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (19 bp):
AAAATAATTTTAAAAATTA
Found at i:16801166 original size:213 final size:208
Alignment explanation
Indices: 16800800--16801206 Score: 629
Period size: 213 Copynumber: 1.9 Consensus size: 208
16800790 ACAATTCGAA
* * *
16800800 TAACTCAAATAACATATTAGTATAAATACCCCTTTGGTCCTTGTCAATTTAAAAAAATGAGCAAA
1 TAACTCAAATAACAGATTAATATAAATACCCCTTTGGTCCCTGTCAATTTAAAAAAATGAGCAAA
* *
16800865 TTAATCTTTCTTTCAACAAATACAAAAAAAATCAAAATAATTTTCAAAAATTCAAAACTAATTTT
66 TTAATCTCTCTTTCAACAAATACAAAAAAAATCAAAATAATTTTCAAAAATTAAAAACTAATTTT
* * *
16800930 AGAATTCAAAATATTTATAAAAATTTCAAAAGTTATAT-TTTTTTAAAATATATAAAAAATTCTA
131 AGAATTCAAAATATTTATAAAAATTCCAAAA-TT-TATCTTTTTAAAAAAATATAAAAAATTCTA
16800994 AGGGGATATTTATAC
194 AGGGGATATTTATAC
*
16801009 TAACTCAAATAACAGATTAATATAAATACCCCTTTGGTCCCTGTCAATTT-TAAAAATGAGCAAA
1 TAACTCAAATAACAGATTAATATAAATACCCCTTTGGTCCCTGTCAATTTAAAAAAATGAGCAAA
* *
16801073 TTAGTCTCTCTTTCAACAAAAATTACAAAAAAAAAGTCAAAATAATTTTCAAAAATTAAAAATTA
66 TTAATCTCTCTTTCAAC--AAA-TAC-AAAAAAAA-TCAAAATAATTTTCAAAAATTAAAAACTA
*
16801138 ATTTTAGAATTCAAAATATTTTTAAAAATTCCAAAATTTATCTTTTTAAAAAAATATAAAAAATT
126 ATTTTAGAATTCAAAATATTTATAAAAATTCCAAAATTTATCTTTTTAAAAAAATATAAAAAATT
16801203 CTAA
191 CTAA
16801207 AGAAAATTTT
Statistics
Matches: 180, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
208 28 0.16
209 47 0.26
210 3 0.02
211 6 0.03
212 35 0.19
213 61 0.34
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.35
Consensus pattern (208 bp):
TAACTCAAATAACAGATTAATATAAATACCCCTTTGGTCCCTGTCAATTTAAAAAAATGAGCAAA
TTAATCTCTCTTTCAACAAATACAAAAAAAATCAAAATAATTTTCAAAAATTAAAAACTAATTTT
AGAATTCAAAATATTTATAAAAATTCCAAAATTTATCTTTTTAAAAAAATATAAAAAATTCTAAG
GGGATATTTATAC
Found at i:16801168 original size:19 final size:19
Alignment explanation
Indices: 16801103--16801174 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
16801093 AATTACAAAA
* *
16801103 AAAAAGTCAAAATAATTTTC
1 AAAAATTCAAAAT-ATTTTT
* *
16801123 AAAAATTAAAAATTAATTTT
1 AAAAATTCAAAA-TATTTTT
*
16801143 -AGAATTCAAAATATTTTT
1 AAAAATTCAAAATATTTTT
16801161 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
16801175 TTATCTTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
18 6 0.15
19 14 0.34
20 20 0.49
21 1 0.02
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATATTTTT
Found at i:16801336 original size:16 final size:16
Alignment explanation
Indices: 16801317--16801347 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16801307 TTGAAAGAGT
16801317 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
16801333 TTTCAAATTTATATG
1 TTTCAAATATATATG
16801348 TTCTAACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:16803396 original size:20 final size:20
Alignment explanation
Indices: 16803344--16803402 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
16803334 TTTAAAATTA
* *
16803344 AAAAAATATAAAATTTCTTTT
1 AAAAAATATAAAAATT-TATT
*
16803365 TAAAAAT-T-AAAATTTATT
1 AAAAAATATAAAAATTTATT
*
16803383 AAAAAATATAAAAATATATT
1 AAAAAATATAAAAATTTATT
16803403 TTTAATATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 9 0.29
19 6 0.19
20 10 0.32
21 6 0.19
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAAATATAAAAATTTATT
Found at i:16803626 original size:29 final size:28
Alignment explanation
Indices: 16803586--16803644 Score: 91
Period size: 29 Copynumber: 2.1 Consensus size: 28
16803576 GCATTTAATT
16803586 AATTTTTTTAAAATTAAAAAATTATTAA
1 AATTTTTTTAAAATTAAAAAATTATTAA
**
16803614 AATTCTTTTTAAAATTTTAAAATTATTAA
1 AATT-TTTTTAAAATTAAAAAATTATTAA
16803643 AA
1 AA
16803645 ATGTAGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
AATTTTTTTAAAATTAAAAAATTATTAA
Found at i:16804917 original size:35 final size:34
Alignment explanation
Indices: 16804846--16804918 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
16804836 TTAATTTTTA
* * *
16804846 TTTTTCGTTGAAAAATATTTTATTTAACCTAATT
1 TTTTTCGTTGAAAAATATTTGATCTAACATAATT
* * * *
16804880 TTTTTCGTTGGAAAATGTTTGGTCTAACATAACT
1 TTTTTCGTTGAAAAATATTTGATCTAACATAATT
16804914 TTTTT
1 TTTTT
16804919 GTGTTGTCTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.27, C:0.10, G:0.11, T:0.52
Consensus pattern (34 bp):
TTTTTCGTTGAAAAATATTTGATCTAACATAATT
Found at i:16814484 original size:92 final size:91
Alignment explanation
Indices: 16814327--16814535 Score: 262
Period size: 92 Copynumber: 2.3 Consensus size: 91
16814317 TTGATTTTAC
* * * *
16814327 TAAATTGATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
*
16814392 A-GTTAAT-ATTAATTATTTTAAATTGTA
65 ATG-TAATAATT-ATTATTTTAAATTATA
*
16814419 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
16814483 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
16814511 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
16814536 GTTATAATTA
Statistics
Matches: 103, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 69 0.67
93 4 0.04
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:16814498 original size:24 final size:25
Alignment explanation
Indices: 16814463--16814510 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
16814453 TTATGAAATT
16814463 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
16814487 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
16814511 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:16814664 original size:66 final size:63
Alignment explanation
Indices: 16814589--16814799 Score: 192
Period size: 66 Copynumber: 3.4 Consensus size: 63
16814579 AAATATATTT
16814589 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
16814654 G
63 G
* * * * **
16814655 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
16814709 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
16814773 AG
62 AG
*
16814775 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
16814800 AAATTATATA
Statistics
Matches: 113, Mismatches: 15, Indels: 35
0.69 0.09 0.21
Matches are distributed among these distances:
53 5 0.04
54 13 0.12
55 5 0.04
56 4 0.04
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 4 0.04
65 9 0.08
66 32 0.28
67 5 0.04
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:16814689 original size:120 final size:120
Alignment explanation
Indices: 16814551--16814843 Score: 502
Period size: 120 Copynumber: 2.4 Consensus size: 120
16814541 AATTATTTTA
* * *
16814551 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
*
16814613 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
16814671 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
16814736 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
16814791 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
16814844 TAAATATGAT
Statistics
Matches: 166, Mismatches: 4, Indels: 6
0.94 0.02 0.03
Matches are distributed among these distances:
119 6 0.04
120 158 0.95
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:16814711 original size:15 final size:15
Alignment explanation
Indices: 16814676--16814727 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
16814666 TTAAGAATTT
*
16814676 TATTAAATTAT-ATA
1 TATTTAATTATAATA
16814690 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
16814704 TATTTAATAATAAT-
1 TATTTAATTATAATA
16814718 TATGTTAATT
1 TAT-TTAATT
16814728 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:16814826 original size:16 final size:16
Alignment explanation
Indices: 16814805--16814846 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
16814795 TTATTAAATT
*
16814805 ATATATTTTAATTATA
1 ATATATTTTAATAATA
16814821 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
16814836 AT-TATGTTTAA
1 ATATAT-TTTAA
16814847 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:16814831 original size:15 final size:15
Alignment explanation
Indices: 16814796--16814837 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16814786 TTAAGAATTT
*
16814796 TATTAAATTAT-ATA
1 TATTTAATTATAATA
16814810 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
16814824 TATTTAATAATAAT
1 TATTTAATTATAAT
16814838 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:16814956 original size:156 final size:157
Alignment explanation
Indices: 16814780--16815095 Score: 571
Period size: 156 Copynumber: 2.0 Consensus size: 157
16814770 ATAAGAATAT
*
16814780 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
16814845 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
16814910 TAATAATTTACCAAAA-AAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
16814936 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
16815001 AAATATGATTAAAATATTTATTATTGATAATAATAGTCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
16815066 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
16815093 TAA
1 TAA
16815096 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
156 141 0.92
157 12 0.08
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:16814976 original size:18 final size:17
Alignment explanation
Indices: 16814948--16814982 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16814938 ATTATTAAGA
*
16814948 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
16814965 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
16814983 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:16815244 original size:16 final size:16
Alignment explanation
Indices: 16815219--16815254 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
16815209 GATTTGCTAT
*
16815219 TACACCTCTAATCCAA
1 TACACATCTAATCCAA
*
16815235 TACACATCTAATTCAA
1 TACACATCTAATCCAA
16815251 TACA
1 TACA
16815255 GCGAACCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACATCTAATCCAA
Found at i:16817596 original size:35 final size:34
Alignment explanation
Indices: 16817545--16817813 Score: 309
Period size: 35 Copynumber: 8.0 Consensus size: 34
16817535 TTGTCTTTTC
* *
16817545 TTGCAGGGAATATTTCCTGTTCACGCATTATTCTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATT-TG
* * *
16817580 TTGCAGGGAATCTTTCCTGTTCA--CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
*
16817612 TTGCAGGGAATCCCTCCTGTTCACGCATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTG
*
16817647 TTGCAGGGAATCTCTCCTGTTCACACATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTG
* * *
16817682 TTGCAGGGAATCTTTCCTGTTCA--CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
* *
16817714 TTACAGGGAATCTCTCCTGTTCACGGATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTG
*
16817749 TTGCAGGGAATCTCTCCTGTTCA--CATCT-TTTC
1 TTGCAGGGAATCTCTCCTGTTCACGCAT-TATTTG
* *
16817781 TTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTT
16817814 CTTTTTGGAC
Statistics
Matches: 203, Mismatches: 21, Indels: 21
0.83 0.09 0.09
Matches are distributed among these distances:
32 72 0.35
33 13 0.06
34 13 0.06
35 105 0.52
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (34 bp):
TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
Found at i:16817649 original size:67 final size:66
Alignment explanation
Indices: 16817540--16817803 Score: 309
Period size: 67 Copynumber: 3.9 Consensus size: 66
16817530 ATCACTTGTC
* * * * *
16817540 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCA--CATTATTTTCTTGCAGGGAATCTCTCCTGTTCACA
*
16817605 TCA
64 TTA
* *
16817608 -TTTCTTGCAGGGAATCCCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCA--CATTATTTTCTTGCAGGGAATCTCTCCTGTT--CA
16817672 CATTA
62 CATTA
* * * *
16817677 TTTTGTTGCAGGGAATCTTTCCTGTTCACATCA-TTTCTTACAGGGAATCTCTCCTGTTCACGGA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACATTATTTTCTTGCAGGGAATCTCTCCTGTTCAC--A
16817741 TTA
64 TTA
* *
16817744 TTTTGTTGCAGGGAATCTCTCCTGTTCACA-TCTTTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACATTATTTTCTTGCAGGGAATCTCTCCTGTTCA
16817804 TGTATTATTT
Statistics
Matches: 174, Mismatches: 16, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
65 3 0.02
67 137 0.79
68 4 0.02
69 6 0.03
70 24 0.14
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (66 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCACATTATTTTCTTGCAGGGAATCTCTCCTGTTCACATT
A
Found at i:16817721 original size:102 final size:102
Alignment explanation
Indices: 16817540--16817803 Score: 408
Period size: 102 Copynumber: 2.6 Consensus size: 102
16817530 ATCACTTGTC
* * * * *
16817540 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
*
16817605 TCATTTCTTGCAGGGAATCCCTCCTGTTCACGCATTA
66 TCATTTCTTACAGGGAATCCCTCCTGTTCACGCATTA
16817642 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
* *
16817707 TCATTTCTTACAGGGAATCTCTCCTGTTCACGGATTA
66 TCATTTCTTACAGGGAATCCCTCCTGTTCACGCATTA
* * *
16817744 TTTTGTTGCAGGGAATCTCTCCTGTT--CACA-TCTTTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCA
16817804 TGTATTATTT
Statistics
Matches: 151, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
99 27 0.18
100 4 0.03
102 120 0.79
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (102 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
TCATTTCTTACAGGGAATCCCTCCTGTTCACGCATTA
Found at i:16820649 original size:20 final size:22
Alignment explanation
Indices: 16820612--16820655 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
16820602 GAGCAAATTG
16820612 TTGATTCTATTTCTTTTTG-AT
1 TTGATTCTATTTCTTTTTGTAT
16820633 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTC-TTTTTGTAT
16820654 TT
1 TT
16820656 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.14
20 10 0.48
21 8 0.38
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.68
Consensus pattern (22 bp):
TTGATTCTATTTCTTTTTGTAT
Found at i:16827202 original size:13 final size:14
Alignment explanation
Indices: 16827184--16827225 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
16827174 TTTCATTTTT
16827184 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
16827197 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
16827212 ATTTTAACTAATAT
1 ATTTTAA-TAATAT
16827226 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:16827216 original size:15 final size:16
Alignment explanation
Indices: 16827189--16827218 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16827179 TTTTTATTTT
16827189 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
16827205 AATAAT-AATTTTAA
1 AATAATAAATTTTAA
16827219 CTAATATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:16827322 original size:31 final size:33
Alignment explanation
Indices: 16827246--16827323 Score: 81
Period size: 34 Copynumber: 2.4 Consensus size: 33
16827236 TTATTGAAAA
* * * *
16827246 TATT-CAATATTAATATTTTAGTAATAAATATT
1 TATTGCAATATAAATATATTAATAATAAATAGT
*
16827278 TATTTCAATTATAAATATATTAATAATAAAT-GT
1 TATTGCAA-TATAAATATATTAATAATAAATAGT
16827311 T-TTGCAATATAAA
1 TATTGCAATATAAA
16827324 AGTTAAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 6 0.15
32 9 0.23
33 5 0.13
34 19 0.49
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (33 bp):
TATTGCAATATAAATATATTAATAATAAATAGT
Found at i:16828317 original size:19 final size:19
Alignment explanation
Indices: 16828277--16828318 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
16828267 TCTGAATAAA
*
16828277 AAAATTTAAAATATTTTTT
1 AAAATTTAAAATATTTTAT
16828296 AAAATTTCAAAATA-TTTAT
1 AAAATTT-AAAATATTTTAT
16828315 AAAA
1 AAAA
16828319 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATTTAAAATATTTTAT
Found at i:16828319 original size:20 final size:19
Alignment explanation
Indices: 16828276--16828319 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
16828266 CTCTGAATAA
*
16828276 AAAAATTTAAAATATTTTT
1 AAAAATTTAAAATATTTAT
*
16828295 TAAAATTTCAAAATATTTAT
1 AAAAATTT-AAAATATTTAT
16828315 AAAAA
1 AAAAA
16828320 AATAAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAATTTAAAATATTTAT
Found at i:16828327 original size:20 final size:20
Alignment explanation
Indices: 16828272--16828329 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
16828262 ATTTCTCTGA
*
16828272 ATAAAAAAATTTAAAATATTT
1 ATAAAAAAA-TAAAAATATTT
* * ** *
16828293 TTTAAAATTTCAAAATATTT
1 ATAAAAAAATAAAAATATTT
16828313 ATAAAAAAATAAAAATA
1 ATAAAAAAATAAAAATA
16828330 ATAATTTTAA
Statistics
Matches: 27, Mismatches: 10, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAAAAAAATAAAAATATTT
Found at i:16828349 original size:25 final size:24
Alignment explanation
Indices: 16828309--16828355 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
16828299 ATTTCAAAAT
16828309 ATTTATAAAAAAATAAAAATAATA
1 ATTTATAAAAAAATAAAAATAATA
16828333 ATTT-TAAAAAATTATAAAAATAA
1 ATTTATAAAAAA--ATAAAAATAA
16828356 AAAAATCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 4 0.19
25 10 0.48
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
ATTTATAAAAAAATAAAAATAATA
Found at i:16836298 original size:192 final size:192
Alignment explanation
Indices: 16835971--16836355 Score: 770
Period size: 192 Copynumber: 2.0 Consensus size: 192
16835961 AGATCCCACA
16835971 TTGGTTAAATACCAAGTGTGAAATGTATATATATATATGAGAACCCACTTAAAAAGTGATTGAAT
1 TTGGTTAAATACCAAGTGTGAAATGTATATATATATATGAGAACCCACTTAAAAAGTGATTGAAT
16836036 GACTAAACTTAAAACCTTATCTTGAGCATAGGGGGTGCAAATCCAAACTCATCAGGGTTGGGGGT
66 GACTAAACTTAAAACCTTATCTTGAGCATAGGGGGTGCAAATCCAAACTCATCAGGGTTGGGGGT
16836101 GCACTTGAACAACATGTGCATCGTGAAATGTTTGAACCGATTAAGTCCAAAATGGACACTTG
131 GCACTTGAACAACATGTGCATCGTGAAATGTTTGAACCGATTAAGTCCAAAATGGACACTTG
16836163 TTGGTTAAATACCAAGTGTGAAATGTATATATATATATGAGAACCCACTTAAAAAGTGATTGAAT
1 TTGGTTAAATACCAAGTGTGAAATGTATATATATATATGAGAACCCACTTAAAAAGTGATTGAAT
16836228 GACTAAACTTAAAACCTTATCTTGAGCATAGGGGGTGCAAATCCAAACTCATCAGGGTTGGGGGT
66 GACTAAACTTAAAACCTTATCTTGAGCATAGGGGGTGCAAATCCAAACTCATCAGGGTTGGGGGT
16836293 GCACTTGAACAACATGTGCATCGTGAAATGTTTGAACCGATTAAGTCCAAAATGGACACTTG
131 GCACTTGAACAACATGTGCATCGTGAAATGTTTGAACCGATTAAGTCCAAAATGGACACTTG
16836355 T
1 T
16836356 GAATATTTTA
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
192 193 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (192 bp):
TTGGTTAAATACCAAGTGTGAAATGTATATATATATATGAGAACCCACTTAAAAAGTGATTGAAT
GACTAAACTTAAAACCTTATCTTGAGCATAGGGGGTGCAAATCCAAACTCATCAGGGTTGGGGGT
GCACTTGAACAACATGTGCATCGTGAAATGTTTGAACCGATTAAGTCCAAAATGGACACTTG
Found at i:16836461 original size:20 final size:21
Alignment explanation
Indices: 16836433--16836484 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 21
16836423 ATTTATCTTG
*
16836433 ATTTTATTTAATTCCAAT-AA
1 ATTTGATTTAATTCCAATCAA
* **
16836453 ATTTGATTTGATTTTAATCAA
1 ATTTGATTTAATTCCAATCAA
16836474 A-TTGATTTAAT
1 ATTTGATTTAAT
16836485 GGATCATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.52
Consensus pattern (21 bp):
ATTTGATTTAATTCCAATCAA
Found at i:16838309 original size:17 final size:17
Alignment explanation
Indices: 16838278--16838336 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 17
16838268 TCCTTAAATT
16838278 TTAAAATATTATTAATTAA
1 TTAAAATA-T-TTAATTAA
16838297 TTAAAATATTTAA-T-A
1 TTAAAATATTTAATTAA
16838312 TTAATAA-ATTT--TTAA
1 TTAA-AATATTTAATTAA
16838327 TTAAAATATT
1 TTAAAATATT
16838337 ACGTGATTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
14 3 0.08
15 17 0.47
16 3 0.08
17 4 0.11
18 1 0.03
19 8 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAAAATATTTAATTAA
Found at i:16838314 original size:19 final size:19
Alignment explanation
Indices: 16838278--16838316 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
16838268 TCCTTAAATT
*
16838278 TTAAAATATTATTAATTAA
1 TTAAAATATTAATAATTAA
16838297 TTAAAATATTTAAT-ATTAA
1 TTAAAATA-TTAATAATTAA
16838316 T
1 T
16838317 AAATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAAAATATTAATAATTAA
Found at i:16842513 original size:18 final size:18
Alignment explanation
Indices: 16842490--16842527 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
16842480 ACTGAATGTA
16842490 TTGTCCTCGTGTTGAATT
1 TTGTCCTCGTGTTGAATT
*
16842508 TTGTCCTCGTGTTGAGTT
1 TTGTCCTCGTGTTGAATT
16842526 TT
1 TT
16842528 ATCCCTAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.16, G:0.24, T:0.53
Consensus pattern (18 bp):
TTGTCCTCGTGTTGAATT
Found at i:16845890 original size:44 final size:47
Alignment explanation
Indices: 16845811--16845900 Score: 132
Period size: 44 Copynumber: 2.0 Consensus size: 47
16845801 AATTGTATAT
* * *
16845811 ATTTTTATTTTTTTTGTAAATTGTATATATTTCAAAAT-ATTATAAG
1 ATTTTTATATATTTTGTAAATTATATATATTTCAAAATAATTATAAG
16845857 ATTTTTATATATTTT-T-AATTATATATATTTCAAAATAATTATAA
1 ATTTTTATATATTTTGTAAATTATATATATTTCAAAATAATTATAA
16845901 CCTAAAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
44 19 0.47
45 8 0.20
46 13 0.32
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (47 bp):
ATTTTTATATATTTTGTAAATTATATATATTTCAAAATAATTATAAG
Found at i:16849186 original size:53 final size:53
Alignment explanation
Indices: 16849102--16849253 Score: 207
Period size: 53 Copynumber: 2.9 Consensus size: 53
16849092 TTTGCAATTG
* * * * *
16849102 CCACACGGCC-ACAGTTTATTACACGGCCTGACCCCACGATTGTGTAACCCCT
1 CCACACGGCCTACAGTCTCTCACACGGTCTGACCACACGATTGTGTAACCCCT
*
16849154 CCACACGGCCTACAGTCTCTCACACGGTCTGACCACATGATTGTGTAACCCCT
1 CCACACGGCCTACAGTCTCTCACACGGTCTGACCACACGATTGTGTAACCCCT
* * * *
16849207 TCACACGGCCTACAGTCGCTCACACGGTCTGACCATACGATCGTGTA
1 CCACACGGCCTACAGTCTCTCACACGGTCTGACCACACGATTGTGTA
16849254 TCATCTGTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
52 10 0.11
53 78 0.89
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.22
Consensus pattern (53 bp):
CCACACGGCCTACAGTCTCTCACACGGTCTGACCACACGATTGTGTAACCCCT
Found at i:16851755 original size:22 final size:22
Alignment explanation
Indices: 16851703--16851788 Score: 66
Period size: 22 Copynumber: 3.6 Consensus size: 22
16851693 TCTATTTTAG
*
16851703 TTATATTATTTTTAGTTGTACTT
1 TTATTTTATTTTTAGTTGTA-TT
*
16851726 CTATTTTATTTGTTAGTTGT-TT
1 TTATTTTATTT-TTAGTTGTATT
* *
16851748 TTATTTTATCTTTCAGACTTATATGAT
1 TTATTTTAT-TTTTAG--TTGTAT--T
16851775 TTATTTTATTTTTA
1 TTATTTTATTTTTA
16851789 TTCTACATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
22 13 0.26
23 11 0.22
24 11 0.22
25 1 0.02
26 4 0.08
27 10 0.20
ACGTcount: A:0.21, C:0.06, G:0.08, T:0.65
Consensus pattern (22 bp):
TTATTTTATTTTTAGTTGTATT
Found at i:16852711 original size:3 final size:3
Alignment explanation
Indices: 16852703--16852737 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
16852693 AAAACTAAAA
16852703 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
16852738 ATATATAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:16853096 original size:13 final size:13
Alignment explanation
Indices: 16853078--16853102 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16853068 ACACTTTGAA
16853078 TGCTTTGAGTGAG
1 TGCTTTGAGTGAG
16853091 TGCTTTGAGTGA
1 TGCTTTGAGTGA
16853103 TCCTTAGTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (13 bp):
TGCTTTGAGTGAG
Found at i:16854266 original size:20 final size:20
Alignment explanation
Indices: 16854229--16854275 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
16854219 AATATTCTAA
16854229 TAATTTAATGACTATC-AAT
1 TAATTTAATGACTATCAAAT
* * *
16854248 GTAATTTATTGATTTTCAAAT
1 -TAATTTAATGACTATCAAAT
16854269 TAATTTA
1 TAATTTA
16854276 GAAATATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.49
Consensus pattern (20 bp):
TAATTTAATGACTATCAAAT
Found at i:16856352 original size:22 final size:21
Alignment explanation
Indices: 16856326--16856370 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
16856316 TACGTTAGCG
16856326 AACAAATATATAAATATAAATA
1 AACAAATATATAAATA-AAATA
* *
16856348 AACAAATATTTATATAAAATA
1 AACAAATATATAAATAAAATA
16856369 AA
1 AA
16856371 TATTTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (21 bp):
AACAAATATATAAATAAAATA
Found at i:16856820 original size:20 final size:20
Alignment explanation
Indices: 16856791--16856837 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
16856781 GAGCCTTTAT
*
16856791 ATCAATTTGAATCAAATCAA
1 ATCAAATTGAATCAAATCAA
* *
16856811 ATCAAATTGATTGAAATCAA
1 ATCAAATTGAATCAAATCAA
*
16856831 ATTAAAT
1 ATCAAAT
16856838 CAAGATATCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.32
Consensus pattern (20 bp):
ATCAAATTGAATCAAATCAA
Found at i:16861399 original size:14 final size:15
Alignment explanation
Indices: 16861376--16861429 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 15
16861366 TATGAGTTTA
16861376 AAAAAGAAAAAAAT-
1 AAAAAGAAAAAAATG
*
16861390 AAAAATAAAAAAATG
1 AAAAAGAAAAAAATG
16861405 AAAAAAGTAAAAGAAA-G
1 -AAAAAG-AAAA-AAATG
16861422 AAAAAGAA
1 AAAAAGAA
16861430 CAGAAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 13 0.38
15 2 0.06
16 11 0.32
17 5 0.15
18 3 0.09
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.07
Consensus pattern (15 bp):
AAAAAGAAAAAAATG
Found at i:16862412 original size:64 final size:71
Alignment explanation
Indices: 16862355--16862489 Score: 191
Period size: 73 Copynumber: 1.9 Consensus size: 71
16862345 GCTTTGAGTT
* * *
16862355 TAAAAAAAAGAAAGAAAAAAGAAAAGA-AGACCGAGGTGAAAACCCGCAAAGGGCGCTTTGAGTC
1 TAAATAAAAGAAAGAAAAAA-AATAGAGAGACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTC
16862419 TAAAAAA
65 TAAAAAA
* *
16862426 TAAATAAAAGAAAAAGAAAAAAAATAGAGAGGCCAAGGTGAAAACCCGCAAAGGGCGCCTTGAG
1 TAAATAAAAG--AAAGAAAAAAAATAGAGAGACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAG
16862490 ACCAAAGGGG
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
71 9 0.16
72 5 0.09
73 42 0.75
ACGTcount: A:0.53, C:0.13, G:0.24, T:0.10
Consensus pattern (71 bp):
TAAATAAAAGAAAGAAAAAAAATAGAGAGACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCT
AAAAAA
Found at i:16863806 original size:45 final size:45
Alignment explanation
Indices: 16863734--16864544 Score: 987
Period size: 45 Copynumber: 18.0 Consensus size: 45
16863724 GGAGTAGGTT
* * * * *
16863734 GAAGATAACAGATTTTGTTTTCCTGTATTGGCAGTGAAATAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * *
16863779 GAAGTTAGCAGATCTTATTTTCCTGTATTGGAAGCAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
16863824 GAAGATAGCAGATCTTGTCTTCCTGTAGTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * ** *
16863869 GAAGGTAGTAGATCTTGTCTTCCTACATTGAG-AGCAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTG-GCAGCGAAGTAGATC
* ** * * * * * * *
16863914 GATGATAAAAGATCTTCTCTTTCTTTACTAGCAACGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
16863959 GACGATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTACATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
16864004 GAAGATAGAAGATCTTGTCGTCCTGTATTGGCAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
16864049 GAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
16864094 GAAGATAGAAGATCTTGTTTTCTTGTATTGGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
16864139 GAAGATAGCAGATCTTGTCTTCCT-TACTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * *
16864183 GAAGATAGCAGATCTTGTCTTCCTATATTTGTAACAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
16864228 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGGGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
16864273 GAAGATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * *
16864318 GAAGATAGCAGATCTTATCTTCCTATACTGGCAGAGAAGAAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * *
16864363 GAAGATAACATATATTATCTTCCTATATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
16864408 GAAGGTAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
** * * * * * *
16864453 GAAGATAATAAATCTTGTCTTTCTGTACTGACAGCGAAGTAAATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
16864498 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
16864543 GA
1 GA
16864545 CAGAGTACTG
Statistics
Matches: 650, Mismatches: 113, Indels: 6
0.85 0.15 0.01
Matches are distributed among these distances:
44 43 0.07
45 606 0.93
46 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
Found at i:16864156 original size:37 final size:37
Alignment explanation
Indices: 16864114--16864200 Score: 93
Period size: 44 Copynumber: 2.2 Consensus size: 37
16864104 GATCTTGTTT
* *
16864114 TCTTGTATTGGCAGCGAAGTAGATTGAAGATAGCAGA
1 TCTTGTACTGGCAGCGAAGTAGATCGAAGATAGCAGA
16864151 TCTTGTCTTCCTTACTGGCAGCGAAGTAGATCGAAGATAGCAGA
1 TCTTG-------TACTGGCAGCGAAGTAGATCGAAGATAGCAGA
16864195 TCTTGT
1 TCTTGT
16864201 CTTCCTATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
37 6 0.15
44 35 0.85
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (37 bp):
TCTTGTACTGGCAGCGAAGTAGATCGAAGATAGCAGA
Found at i:16865145 original size:45 final size:45
Alignment explanation
Indices: 16865081--16866372 Score: 1448
Period size: 45 Copynumber: 29.2 Consensus size: 45
16865071 GAAAGATAAT
* * * *
16865081 AGATTTTGTTTTCCTGTATTGGCAGTGAAGTAGATCGAAGTTAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * *
16865126 AGATATTGTCTTCATGTATTGGCCGCGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * *
16865171 AGATCTTGTCTTCCTATATTGGCAGCGAAGTAAATCGAACATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * * *
16865216 TGATATTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGGTAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * *
16865261 AGATCTTGTCTTCCTGTATTAGCAGCAAAGTAGATTGAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * * * **
16865306 AGATCTTGTATTCCTGTACTGGCAGCGAAGTAGATCGAAAAAAAT
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * *
16865351 AGATTTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGATAAC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * *
16865396 AGATCTTATCTTTCTGTATTGGCAGCGAAGTAGATTGAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * * * * *
16865441 AGATGTTATCTTCCTGTACTGGCAGTGAATTACATCGAAGATA--
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * * *
16865484 A-ATCTTATCTTCCTGTATTGGCAGCGAAGTAGAGCGATGATAGT
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* ** * *
16865528 AGATCTTGTCTTTCTGTATTTACAGCGAAGTAGATTGAAGATAAC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* *
16865573 AGATCTTGTCTTCCTGTATTGGTAGCGAAGTAGATTGAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * *
16865618 AGATCTTATCTTCCTGTACTGGCAACGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * ** *
16865663 AGATCTTGTCTTCCTATATTTGCAGTAAAGTAGATCGAAGATAGT
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * *
16865708 GGATCTTGTCTTCCTGTATTGGCAGAGAAATAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* *
16865753 AGATCTTGTCTTCTTGTACT-G--GC-----AG--CGAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * *
16865788 AGATCTTGTCTTCTTGTACTGGCAACGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * * * *
16865833 AGATCTTGTCTTCTTGTATTAGCAGCGGAGTAGATTGAATATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * * ** *
16865878 AGATCTTATCTTCCTATATTGGCAGCAAAGTAGATTAAAGATAGT
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * * * *
16865923 AGATGTTGTCTTCCTGTACTGGCAGTGAAGTACATCGAAGATAGA
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
16865968 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
*
16866013 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * *
16866058 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATTGAAGGTAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * *
16866103 AGATTTTGTCTTCCTGTACTGGCAACGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * * * * * * *
16866148 AAATCTTTTCTTCCTATGTTTGCAGCAAAGTAGATCTAATATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * *
16866193 AGATCTTGCCTTCCTGTATTGGCAGGGAAGCAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * *
16866238 AGA-CTTGTCTTTCTGTACTGGCA-C---------CAAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
16866272 AGA-CATTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
1 AGATC-TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
** * *
16866317 AGATCTTGTCTTCAAGTATTGGCAGCAAAGTAGAAT-GAAGTTAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG-ATCGAAGATAGC
*
16866362 AGATATTGTCT
1 AGATCTTGTCT
16866373 CCCTAAGCAG
Statistics
Matches: 1050, Mismatches: 171, Indels: 52
0.82 0.13 0.04
Matches are distributed among these distances:
34 13 0.01
35 47 0.04
36 2 0.00
37 2 0.00
38 1 0.00
42 35 0.03
43 3 0.00
44 19 0.02
45 925 0.88
46 3 0.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (45 bp):
AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
Found at i:16865789 original size:35 final size:35
Alignment explanation
Indices: 16865743--16865817 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 35
16865733 AGAAATAGAT
*
16865743 CGAAGATAGCAGATCTTGTCTTCTTGTACTGGCAG
1 CGAAGATAGCAGATCTTGTCTTCTTGTACTGGCAA
16865778 CGAAGATAGCAGATCTTGTCTTCTTGTACTGGCAA
1 CGAAGATAGCAGATCTTGTCTTCTTGTACTGGCAA
16865813 CGAAG
1 CGAAG
16865818 TAGATCGAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (35 bp):
CGAAGATAGCAGATCTTGTCTTCTTGTACTGGCAA
Found at i:16866273 original size:34 final size:35
Alignment explanation
Indices: 16866230--16866295 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
16866220 AAGCAGATCG
*
16866230 AAGATAGCAGAC-TTGTCTTTCTGTACTGGCACCA
1 AAGATAGCAGACATTGTCTTCCTGTACTGGCACCA
*
16866264 AAGATAGCAGACATTGTCTTCCTGTATTGGCA
1 AAGATAGCAGACATTGTCTTCCTGTACTGGCA
16866296 GCGAAGTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 12 0.41
35 17 0.59
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (35 bp):
AAGATAGCAGACATTGTCTTCCTGTACTGGCACCA
Found at i:16866680 original size:132 final size:132
Alignment explanation
Indices: 16866372--16866680 Score: 424
Period size: 132 Copynumber: 2.3 Consensus size: 132
16866362 AGATATTGTC
* * * *
16866372 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAAATCTTATTTTCCCAAGGTAGTAGGGAAGC
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCTTATCTTCCCAAGGTAGTAGGGAAGA
*
16866437 AGATTTAAGCCACCAGTCCTATCACCCTGAGCAGCGGTAGAGTAGGTTGAAGATTGTAGATCCTG
66 AGATTTAAGCCACCAATCCTATCACCCTGAGCAGCGGTAGAGTAGGTTGAAGATTGTAGATCCTG
*
16866502 TC
131 TA
* * *
16866504 TCCCTAAGCAGTAGTGGAGCAGACCTAAGATAGCAAATCCTATCTTCCCAAGGTAGTAGGGAAGA
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCTTATCTTCCCAAGGTAGTAGGGAAGA
* * * *
16866569 ATATTTAAGCCACTAATCCCT-TCTCCCTGAGCAG-GAGTGGAGTAGGTTGAAGATTGTAGATCC
66 AGATTTAAGCCACCAAT-CCTATCACCCTGAGCAGCG-GTAGAGTAGGTTGAAGATTGTAGATCC
16866632 TGTA
129 TGTA
* * ** *
16866636 TCCTTAAGTAGTAGTGGAGCAGATCGAAGGCAGCGAATCTTATCT
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCTTATCT
16866681 CCTTGGCGTT
Statistics
Matches: 154, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
131 1 0.01
132 150 0.97
133 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (132 bp):
TCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCTTATCTTCCCAAGGTAGTAGGGAAGA
AGATTTAAGCCACCAATCCTATCACCCTGAGCAGCGGTAGAGTAGGTTGAAGATTGTAGATCCTG
TA
Found at i:16866827 original size:44 final size:45
Alignment explanation
Indices: 16866762--16866855 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 45
16866752 AGATCAAGAC
* *
16866762 TGAAGATAACCAACCTTATCTCCTTGAAGTTACAGTGGAGCCGGT
1 TGAAGATAACCAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGT
* * ** *
16866807 TGAAGAT-ATCAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGGT
1 TGAAGATAACCAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGT
16866851 TGAAG
1 TGAAG
16866856 GAAGTGAGCC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 35 0.83
45 7 0.17
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (45 bp):
TGAAGATAACCAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGT
Found at i:16867835 original size:36 final size:37
Alignment explanation
Indices: 16867760--16867840 Score: 94
Period size: 36 Copynumber: 2.2 Consensus size: 37
16867750 CATACATACG
* *
16867760 TTTTATAATATATACATATACATACACATTTTTTAAT
1 TTTTATAATATATACATATACACACACATTTTATAAT
* *
16867797 TTTTATAA-ATATATATATACACATAC-TTTTATATAT
1 TTTTATAATATATACATATACACACACATTTTATA-AT
16867833 TTTCTATA
1 TTT-TATA
16867841 TTTCATAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 6 0.16
36 20 0.53
37 12 0.32
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.51
Consensus pattern (37 bp):
TTTTATAATATATACATATACACACACATTTTATAAT
Found at i:16869538 original size:30 final size:30
Alignment explanation
Indices: 16869504--16869756 Score: 222
Period size: 30 Copynumber: 8.4 Consensus size: 30
16869494 TTCATCGAAC
* * *
16869504 TATGAAAAGGGATCGCTTTGGCTGTCAAAT
1 TATGAAAAGGGATAGCTTCGGCTATCAAAT
* **
16869534 TATGAAAAGGGATAGCTTTGATTATCAAAT
1 TATGAAAAGGGATAGCTTCGGCTATCAAAT
* *
16869564 TTTGAAAAGGGATAGCTTCAGCTATCAAAT
1 TATGAAAAGGGATAGCTTCGGCTATCAAAT
* *
16869594 TATGAAAAGAGATAGCTTCGTCTATCAAAT
1 TATGAAAAGGGATAGCTTCGGCTATCAAAT
* * ** * * *
16869624 TATGAAAAGGGAT-GGTGACAACCATCGAAC
1 TATGAAAAGGGATAGCT-TCGGCTATCAAAT
* *
16869654 TATGAAAAGGGATAGCTTCGGCTGTCGAAT
1 TATGAAAAGGGATAGCTTCGGCTATCAAAT
* * * * *
16869684 TATGAAAAGGGAT-GGTGACGACCATCAAAA
1 TATGAAAAGGGATAGCT-TCGGCTATCAAAT
* *
16869714 TATGAAAAGGGATAGCTTCGACTATCGAAT
1 TATGAAAAGGGATAGCTTCGGCTATCAAAT
* *
16869744 CATGAAAAAGGAT
1 TATGAAAAGGGAT
16869757 GGTGACAACC
Statistics
Matches: 177, Mismatches: 42, Indels: 8
0.78 0.19 0.04
Matches are distributed among these distances:
29 4 0.02
30 169 0.95
31 4 0.02
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.26
Consensus pattern (30 bp):
TATGAAAAGGGATAGCTTCGGCTATCAAAT
Found at i:16869758 original size:60 final size:60
Alignment explanation
Indices: 16869528--16869769 Score: 288
Period size: 60 Copynumber: 4.0 Consensus size: 60
16869518 GCTTTGGCTG
* * * * * * * * *
16869528 TCAAATTATGAAAAGGGATAGCTTTGATTATCAAATTTTGAAAAGGGATAGCT-TCAGCTA
1 TCAAAATATGAAAAGGGATAGCTTCGACTATCGAATTATGAAAAGGGAT-GGTGACAACCA
* * * *
16869588 TCAAATTATGAAAAGAGATAGCTTCGTCTATCAAATTATGAAAAGGGATGGTGACAACCA
1 TCAAAATATGAAAAGGGATAGCTTCGACTATCGAATTATGAAAAGGGATGGTGACAACCA
* * * * *
16869648 TCGAACTATGAAAAGGGATAGCTTCGGCTGTCGAATTATGAAAAGGGATGGTGACGACCA
1 TCAAAATATGAAAAGGGATAGCTTCGACTATCGAATTATGAAAAGGGATGGTGACAACCA
* *
16869708 TCAAAATATGAAAAGGGATAGCTTCGACTATCGAATCATGAAAAAGGATGGTGACAACCA
1 TCAAAATATGAAAAGGGATAGCTTCGACTATCGAATTATGAAAAGGGATGGTGACAACCA
16869768 TC
1 TC
16869770 GTGGTTTTAC
Statistics
Matches: 158, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
59 2 0.01
60 156 0.99
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.25
Consensus pattern (60 bp):
TCAAAATATGAAAAGGGATAGCTTCGACTATCGAATTATGAAAAGGGATGGTGACAACCA
Found at i:16871485 original size:23 final size:23
Alignment explanation
Indices: 16871455--16871501 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
16871445 AAATAAGGAG
16871455 AAAGTTTTGGCCAAGCAAGATTT
1 AAAGTTTTGGCCAAGCAAGATTT
16871478 AAAGTTTTGGCCAAGCAAGATTT
1 AAAGTTTTGGCCAAGCAAGATTT
16871501 A
1 A
16871502 CCTTGCATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGTTTTGGCCAAGCAAGATTT
Found at i:16872308 original size:81 final size:80
Alignment explanation
Indices: 16872166--16872314 Score: 237
Period size: 81 Copynumber: 1.9 Consensus size: 80
16872156 CTTAATTATA
* *
16872166 CCCTGAATTGTACTTATGTGCCCCTGTTGTACTTCAATACCCCTAAATTGCACTTACGTGCCCCT
1 CCCTGAATTGTACTTACGTGCCCCTGTTGTACTTCAATACCCCTAAATTGCACATACGTGCCCCT
16872231 GTTGTTCTTCAGTAC
66 GTTGTTCTTCAGTAC
* *
16872246 CCCTGAATT-TCACTTACGTGCCCCTGTTTGTACTTCAATACCCCTGAATTGCACATATGTGCCC
1 CCCTGAATTGT-ACTTACGTGCCCCTG-TTGTACTTCAATACCCCTAAATTGCACATACGTGCCC
16872310 CTGTT
64 CTGTT
16872315 TACACTCCGA
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
79 1 0.02
80 23 0.37
81 39 0.62
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.36
Consensus pattern (80 bp):
CCCTGAATTGTACTTACGTGCCCCTGTTGTACTTCAATACCCCTAAATTGCACATACGTGCCCCT
GTTGTTCTTCAGTAC
Found at i:16872315 original size:41 final size:40
Alignment explanation
Indices: 16872166--16872314 Score: 217
Period size: 40 Copynumber: 3.7 Consensus size: 40
16872156 CTTAATTATA
* *
16872166 CCCTGAATTGTACTTATGTGCCCCTGTTGTACTTCAATAC
1 CCCTGAATTGCACTTACGTGCCCCTGTTGTACTTCAATAC
* * *
16872206 CCCTAAATTGCACTTACGTGCCCCTGTTGTTCTTCAGTAC
1 CCCTGAATTGCACTTACGTGCCCCTGTTGTACTTCAATAC
*
16872246 CCCTGAATTTCACTTACGTGCCCCTGTTTGTACTTCAATAC
1 CCCTGAATTGCACTTACGTGCCCCTG-TTGTACTTCAATAC
* *
16872287 CCCTGAATTGCACATATGTGCCCCTGTT
1 CCCTGAATTGCACTTACGTGCCCCTGTT
16872315 TACACTCCGA
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 61 0.64
41 35 0.36
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.36
Consensus pattern (40 bp):
CCCTGAATTGCACTTACGTGCCCCTGTTGTACTTCAATAC
Found at i:16873945 original size:35 final size:35
Alignment explanation
Indices: 16873842--16873931 Score: 153
Period size: 35 Copynumber: 2.6 Consensus size: 35
16873832 TATAGTCTAT
16873842 AGGCTCTACGAAGCGACACCATGGAAATGGTTTAC
1 AGGCTCTACGAAGCGACACCATGGAAATGGTTTAC
*
16873877 AGGCTCTACAAAGCGACACCATGGAAATGGTTTAC
1 AGGCTCTACGAAGCGACACCATGGAAATGGTTTAC
* *
16873912 AGGCTCTACGGAGCGGCACC
1 AGGCTCTACGAAGCGACACC
16873932 TTAAAAAAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.30, C:0.26, G:0.27, T:0.18
Consensus pattern (35 bp):
AGGCTCTACGAAGCGACACCATGGAAATGGTTTAC
Found at i:16876755 original size:21 final size:21
Alignment explanation
Indices: 16876730--16876769 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
16876720 CAAGCTTAAC
16876730 ACAAACTAATTTCAATATCCA
1 ACAAACTAATTTCAATATCCA
16876751 ACAAACTAATTTCAATATC
1 ACAAACTAATTTCAATATC
16876770 AATATCCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (21 bp):
ACAAACTAATTTCAATATCCA
Found at i:16887272 original size:4 final size:4
Alignment explanation
Indices: 16887258--16887400 Score: 58
Period size: 4 Copynumber: 36.2 Consensus size: 4
16887248 GAAGGAGAGG
*
16887258 GAAA G-AA GAAA GAAA GAAA G-AA -AAA GAAA GAAAA GGAAA GGAGAG
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA -GA-AA
* *
16887303 GGAA GAAA G-AA -AAA GAAG GAAA GAAAA GAAAA GGAGAA GAAA -AAA
1 GAAA GAAA GAAA GAAA GAAA GAAA G-AAA G-AAA -GA-AA GAAA GAAA
* * *
16887348 -AAA GAAA G-AA G-AA G-AA G-AA GAAGA GGGAA GGAA GGAA -AAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAA-A -GAAA GAAA GAAA GAAA GAAA
16887392 GAAA GAAA G
1 GAAA GAAA G
16887401 GTAATTTTTG
Statistics
Matches: 115, Mismatches: 8, Indels: 32
0.74 0.05 0.21
Matches are distributed among these distances:
3 31 0.27
4 54 0.47
5 23 0.20
6 7 0.06
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:16887310 original size:34 final size:34
Alignment explanation
Indices: 16887271--16887399 Score: 154
Period size: 34 Copynumber: 3.7 Consensus size: 34
16887261 AGAAGAAAGA
* *
16887271 AAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAGGG
1 AAGAAAGAAAAAGAAAGAAAAGAAAAGAAGAGGG
* *
16887305 AAGAAAGAAAAAG-AAGGAAAGAAAAGAAAAGGAG
1 AAGAAAGAAAAAGAAAGAAAAGAAAAGAAGAGG-G
*
16887339 AAGAAAAAAAAAGAAAGAAGAAGAAGAAGAAGAGGG
1 AAGAAAGAAAAAGAAAGAA-AAGAA-AAGAAGAGGG
*
16887375 AAGGAAGGAAAAAGAAAG-AAAGAAA
1 AA-GAAAGAAAAAGAAAGAAAAGAAA
16887400 GGTAATTTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
33 15 0.19
34 27 0.33
35 9 0.11
36 9 0.11
37 21 0.26
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (34 bp):
AAGAAAGAAAAAGAAAGAAAAGAAAAGAAGAGGG
Found at i:16887310 original size:38 final size:38
Alignment explanation
Indices: 16887267--16887399 Score: 138
Period size: 38 Copynumber: 3.6 Consensus size: 38
16887257 GGAAAGAAGA
16887267 AAGAAAGAAAGAA-AAAGAAAGAAAAGGAAAGGAGAGGG
1 AAGAAAGAAA-AAGAAAGAAAGAAAAGGAAAGGAGAGGG
* *
16887305 AAGAAAGAAAAAGAAGGAAAGAAAA-GAAA--AG-GAG
1 AAGAAAGAAAAAGAAAGAAAGAAAAGGAAAGGAGAGGG
* *
16887339 AAGAAAAAAAAAGAAAG-AAGAAGAA-G-AAGAAGAGGG
1 AAGAAAGAAAAAGAAAGAAAGAA-AAGGAAAGGAGAGGG
*
16887375 AAGGAAGGAAAAAGAAAGAAAGAAA
1 AA-GAAAGAAAAAGAAAGAAAGAAA
16887400 GGTAATTTTT
Statistics
Matches: 81, Mismatches: 7, Indels: 15
0.79 0.07 0.15
Matches are distributed among these distances:
33 7 0.09
34 20 0.25
35 4 0.05
36 4 0.05
37 20 0.25
38 26 0.32
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (38 bp):
AAGAAAGAAAAAGAAAGAAAGAAAAGGAAAGGAGAGGG
Found at i:16888098 original size:159 final size:153
Alignment explanation
Indices: 16887731--16888528 Score: 704
Period size: 159 Copynumber: 5.1 Consensus size: 153
16887721 AAAATGTTAT
* *
16887731 ATTTAAAAAAGACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
1 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATAA
* * *
16887796 AATTA-AAAAT--TATGATTTTTTTAAAGTAATAAAATGCAGAGAAAAAAGTACGAACAAATGGC
66 AA-TAGAAAATAATAT-ATTTTTTTAAAGTAATAAAATGC-GGGAAAAAAATACGAACAAAGGGC
* * *
16887858 CGAAGTAAGAGTGTTTTACTAAATT-
128 AGAAATAAGAGTCTTTTACTAAATTA
* ** * *
16887883 -TTTAAAAAATTCAGAAAAAAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAA
1 ATTTAAAAAA--CA-CACTAAATTAAT---AA-ATTTCAAACATAATGTACTGAAATAATGTAAA
* * * * *
16887947 ATAATAAAATACGAAAATAATATATTTTTATTGAAGTAACAAAATTCGGGAAAATAATACGAGCA
59 ATAATAAAATA-GAAAATAATATATTTTT-TTAAAGTAATAAAATGCGGGAAAAAAATACGAACA
*
16888012 AAGGGCAGAAATAATGATTTCTTTTACACTAAATTA
122 AAGGGCAGAAATAA-GA-GTCTTTT--ACTAAATTA
* * *
16888048 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCATTGAAATAATGTAAAATTATAA
1 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATAA
* * * * * *
16888113 ATTTATAAAGTATTATA-TTTTTTAAAGTAATAAAATGCGGAGAAAAAAATAGGAACAAAGGGCC
66 A-ATAGAAAATAATATATTTTTTTAAAGTAATAAAATGCGG-GAAAAAAATACGAACAAAGGGCA
* ** *
16888177 GAAGTAAGAGTCTTTTACTATTTTT
129 GAAATAAGAGTCTTTTACTAAATTA
* * * * * * * *
16888202 TTTTAAATTCAGAA-ATAATGAA-TACA-AATATTTCGAACAAAATATACTGAAATAATATAAAA
1 ATTTAAA---A-AACACACTAAATTA-ATAA-ATTTCAAACATAATGTACTGAAATAATGTAAAA
* * *
16888264 TAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATACGAGCA
60 TAATAAAATA-GAAAATAATATATTTTT-TT-AAAGTAATAAAATGCGGGAAAAAAATACGAACA
*
16888329 AAGGGCA-AGAATAAGAGTTTTTTTTTTACACTAAATTA
122 AAGGGCAGA-AATAAGAG----TCTTTT--ACTAAATTA
* * * *
16888367 ATTCAAAAAACACACTAAATTAATAAATTTCAAACATAATGCATTGAAATAATGTAAAATTATAA
1 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATAA
*
16888432 AATTAG-AAATTATGATA-TTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGC
66 AA-TAGAAAATAAT-ATATTTTTTTAAAGTAATAAAATGCGG-GAAAAAAATACGAACAAAGGGC
* *
16888495 CGAAGTAAGAGTCTTTTACTAAATT-
128 AGAAATAAGAGTCTTTTACTAAATTA
*
16888520 TTTTAAAAA
1 ATTTAAAAA
16888529 TTCAGAAATA
Statistics
Matches: 513, Mismatches: 89, Indels: 87
0.74 0.13 0.13
Matches are distributed among these distances:
151 9 0.02
153 8 0.02
154 29 0.06
156 17 0.03
157 71 0.14
158 74 0.14
159 93 0.18
160 80 0.16
161 32 0.06
162 50 0.10
163 20 0.04
164 10 0.02
165 11 0.02
166 9 0.02
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (153 bp):
ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATAA
AATAGAAAATAATATATTTTTTTAAAGTAATAAAATGCGGGAAAAAAATACGAACAAAGGGCAGA
AATAAGAGTCTTTTACTAAATTA
Found at i:16888312 original size:317 final size:317
Alignment explanation
Indices: 16887731--16888540 Score: 1304
Period size: 319 Copynumber: 2.5 Consensus size: 317
16887721 AAAATGTTAT
* * * * *
16887731 ATTTAAAAAAGACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
1 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCATTGAAATAATGTAAAATTATAA
* * *
16887796 AATTAAAAATTATGAT-TTTTTTAAAGTAATAAAATGCAGAGAAAAAAGTACGAACAAATGGCCG
66 AATTAAAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCCG
* * * *
16887860 AAGTAAGAGTGTTTTACTAAATTTTTAAAAAATTCAGAAAAAAATTAATACAAATATTTCAAACA
131 AAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAG-AAATAATGAATACAAATATTTCAAACA
*
16887925 AAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAGTAACAAA
195 AAATATACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAGTAACAAA
16887990 ATTCGGGAAAATAATACGAGCAAAGGGC-AGAAATAATGA-TTTCTTTTACACTAAATTA
260 ATTCGGGAAAATAATACGAGCAAAGGGCAAG-AATAA-GATTTTCTTTTACACTAAATTA
16888048 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCATTGAAATAATGTAAAATTATAA
1 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCATTGAAATAATGTAAAATTATAA
* * * * *
16888113 ATTTATAAAGTATTATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATAGGAACAAAGGGCCG
66 AATTAAAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCCG
* ** *
16888178 AAGTAAGAGTCTTTTACT-ATTTTTTTTTAAATTCAGAAATAATGAATACAAATATTTCGAACAA
131 AAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATGAATACAAATATTTCAAACAA
*
16888242 AATATACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAA
196 AATATACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTG-AAGTAACAAA
*
16888307 ATTCGGGAAAATAATACGAGCAAAGGGCAAGAATAAGAGTTTTTTTTTTACACTAAATTA
260 ATTCGGGAAAATAATACGAGCAAAGGGCAAGAATAAGA--TTTTCTTTTACACTAAATTA
*
16888367 ATTCAAAAAACACACTAAATTAATAAATTTCAAACATAATGCATTGAAATAATGTAAAATTATAA
1 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCATTGAAATAATGTAAAATTATAA
*
16888432 AATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCCG
66 AATTAAAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCCG
16888497 AAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAAT
131 AAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAAT
16888541 TTTTAAAAAT
Statistics
Matches: 453, Mismatches: 33, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
316 80 0.18
317 128 0.28
318 63 0.14
319 160 0.35
320 22 0.05
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (317 bp):
ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCATTGAAATAATGTAAAATTATAA
AATTAAAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCCG
AAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATGAATACAAATATTTCAAACAA
AATATACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAGTAACAAAA
TTCGGGAAAATAATACGAGCAAAGGGCAAGAATAAGATTTTCTTTTACACTAAATTA
Found at i:16888545 original size:21 final size:21
Alignment explanation
Indices: 16888519--16888561 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
16888509 TTTACTAAAT
16888519 TTTTTAAAAATTCAGAAATAA
1 TTTTTAAAAATTCAGAAATAA
16888540 TTTTTAAAAATTCAGAAATAA
1 TTTTTAAAAATTCAGAAATAA
16888561 T
1 T
16888562 ATATTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.40
Consensus pattern (21 bp):
TTTTTAAAAATTCAGAAATAA
Found at i:16888630 original size:118 final size:117
Alignment explanation
Indices: 16888430--16888647 Score: 282
Period size: 118 Copynumber: 1.9 Consensus size: 117
16888420 GTAAAATTAT
* *
16888430 AAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGC
1 AAAATTAGAAATAATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAAGACGAACAAAGGGC
*
16888495 CGAAGTAAGAGTCTTTTACTAAATTTTTTA-AAAATTCAGAAATAATTTTTA
66 CGAAATAAGAGTCTTTTACTAAATTTTTTAGAAAATTCAGAAATAATTTTTA
*
16888546 AAAATTCAGAAATAAT-ATATTTTTATTGAAAGTAATAAAATTCGG-GAAAAAAAGACGAAC-AA
1 AAAATT-AGAAATAATGATA-TTTT-TT-AAAGTAATAAAATGCGGAGAAAAAAAGACGAACAAA
* * * * *
16888608 GTGGCTGAAATAAGGGTTTTTTACTTATTTTTTTAGAAAA
62 G-GGCCGAAATAAGAGTCTTTTACTAAATTTTTTAGAAAA
16888648 AAGAAATAAT
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
116 9 0.10
117 15 0.17
118 43 0.49
119 20 0.23
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (117 bp):
AAAATTAGAAATAATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAAGACGAACAAAGGGC
CGAAATAAGAGTCTTTTACTAAATTTTTTAGAAAATTCAGAAATAATTTTTA
Found at i:16894060 original size:37 final size:37
Alignment explanation
Indices: 16893961--16894061 Score: 102
Period size: 37 Copynumber: 2.7 Consensus size: 37
16893951 ACCACTAATC
* *
16893961 CTAATAACTAATACAATAACAATAATAA-TAGTTTTATA
1 CTAA-AACTAATA-ACTAACAATAATAATTAGGTTTATA
*
16893999 CTCAAAA-TAAT-ACTAATAATAATAATTAGGGTTT-TA
1 CT-AAAACTAATAACTAACAATAATAATTA-GGTTTATA
*
16894035 CTAAAACTAATAACTAACCATAATAAT
1 CTAAAACTAATAACTAACAATAATAAT
16894062 AATATTAGTT
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
35 16 0.30
36 10 0.19
37 21 0.40
38 4 0.08
39 2 0.04
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (37 bp):
CTAAAACTAATAACTAACAATAATAATTAGGTTTATA
Found at i:16894088 original size:42 final size:42
Alignment explanation
Indices: 16894012--16894092 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 42
16894002 AAAATAATAC
16894012 TAATAATAATAATTAGGGTTTTACTAAAACTAATAACTAACCA
1 TAATAATAATAATTAGGGTTTTACTAAAACTAAT-ACTAACCA
**
16894055 TAATAATAAT-ATTAGTTTTTTACTAACAA-TAATACTAA
1 TAATAATAATAATTAGGGTTTTACTAA-AACTAATACTAA
16894093 GTAACATCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 5 0.14
42 18 0.51
43 12 0.34
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.37
Consensus pattern (42 bp):
TAATAATAATAATTAGGGTTTTACTAAAACTAATACTAACCA
Found at i:16894271 original size:11 final size:11
Alignment explanation
Indices: 16894255--16894294 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
16894245 TAAAAAATAC
16894255 CTTTTTTTTCT
1 CTTTTTTTTCT
16894266 CTTTTTTTTCT
1 CTTTTTTTTCT
*
16894277 CTCTTTTTCTCT
1 CT-TTTTTTTCT
16894289 CTTTTT
1 CTTTTT
16894295 CCGGCAGCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (11 bp):
CTTTTTTTTCT
Found at i:16894272 original size:10 final size:10
Alignment explanation
Indices: 16894259--16894295 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
16894249 AAATACCTTT
*
16894259 TTTTTCTCTTT
1 TTTTTCTC-TC
16894270 TTTTTCTCTC
1 TTTTTCTCTC
16894280 TTTTTCTCTC
1 TTTTTCTCTC
16894290 TTTTTC
1 TTTTTC
16894296 CGGCAGCACC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTCTCTC
Found at i:16894274 original size:13 final size:13
Alignment explanation
Indices: 16894256--16894284 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16894246 AAAAAATACC
16894256 TTTTTTT-TCTCT
1 TTTTTTTCTCTCT
16894268 TTTTTTTCTCTCT
1 TTTTTTTCTCTCT
16894281 TTTT
1 TTTT
16894285 CTCTCTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTTCTCTCT
Found at i:16913109 original size:14 final size:14
Alignment explanation
Indices: 16913090--16913119 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
16913080 TTATTTAAAA
16913090 ATTGAGAAGGGATT
1 ATTGAGAAGGGATT
16913104 ATTGAGAAGGGATT
1 ATTGAGAAGGGATT
16913118 AT
1 AT
16913120 AAGTAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (14 bp):
ATTGAGAAGGGATT
Found at i:16920115 original size:13 final size:12
Alignment explanation
Indices: 16920089--16920133 Score: 63
Period size: 12 Copynumber: 3.6 Consensus size: 12
16920079 ATCTAAATTC
16920089 TATTTTTATTAA
1 TATTTTTATTAA
*
16920101 TATTTTTAATAAA
1 TATTTTT-ATTAA
16920114 TATTTTTTATTAA
1 TA-TTTTTATTAA
16920127 TATTTTT
1 TATTTTT
16920134 TCGTGTTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 12 0.41
13 12 0.41
14 5 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTTTTATTAA
Found at i:16920134 original size:13 final size:13
Alignment explanation
Indices: 16920091--16920134 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
16920081 CTAAATTCTA
16920091 TTTTTATTAATAT
1 TTTTTATTAATAT
* *
16920104 TTTTAATAAATAT
1 TTTTTATTAATAT
16920117 TTTTTATTAATAT
1 TTTTTATTAATAT
16920130 TTTTT
1 TTTTT
16920135 CGTGTTCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTTATTAATAT
Found at i:16921093 original size:30 final size:31
Alignment explanation
Indices: 16921050--16921123 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
16921040 GAAAGTGTTT
*
16921050 TTTTTTTATAAAAAA-CGACCTATTTTTGTAA
1 TTTTTTTA-AAAAAATCGACCTATTTTCGTAA
* **
16921081 TTTTTTTAAAAAAATTGGTCTATTTTCGTAA
1 TTTTTTTAAAAAAATCGACCTATTTTCGTAA
16921112 TTTTTTTAAAAA
1 TTTTTTTAAAAA
16921124 GGACTTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 6 0.16
31 32 0.84
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (31 bp):
TTTTTTTAAAAAAATCGACCTATTTTCGTAA
Found at i:16923837 original size:21 final size:21
Alignment explanation
Indices: 16923811--16923851 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16923801 TAGCAGGACC
*
16923811 GCTGATGTGGCAAGTTAACTA
1 GCTGATGTGACAAGTTAACTA
*
16923832 GCTGATGTGACCAGTTAACT
1 GCTGATGTGACAAGTTAACT
16923852 TGCCACGCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (21 bp):
GCTGATGTGACAAGTTAACTA
Found at i:16928586 original size:14 final size:14
Alignment explanation
Indices: 16928567--16928594 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16928557 TTCTTTTCAA
16928567 TTTTTTGTATTGAT
1 TTTTTTGTATTGAT
16928581 TTTTTTGTATTGAT
1 TTTTTTGTATTGAT
16928595 ACTTCCTCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (14 bp):
TTTTTTGTATTGAT
Found at i:16929731 original size:88 final size:88
Alignment explanation
Indices: 16929582--16929985 Score: 511
Period size: 88 Copynumber: 4.6 Consensus size: 88
16929572 AATATTCGCC
* * * * * * *
16929582 GTCTTCGATCTACTTCACTGTCGAGGCAGGAAGGAAATATCTACTATCTTCAACCTACTCCACTA
1 GTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTA
16929647 CAACCGAGGGAGGCAAGGCTTGT
66 CAACCGAGGGAGGCAAGGCTTGT
* * * * * *
16929670 GTCTTCAATCTACTTCGCTGTCAATGCAGGAATGCAAGATTTGCTGTCTTCAACCTGCTCCACTA
1 GTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTA
* *
16929735 CAACCGAGGAAGACAAGGCTTGT
66 CAACCGAGGGAGGCAAGGCTTGT
* * * * * * * *
16929758 TTCTTCGATCCGCTTCACTGTCGATGTAGGAAGGCAAGATTTTCCATCTTCAACTTGCTCCACTA
1 GTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTA
16929823 CAACCGAGGGAGGCAAGGCTTGT
66 CAACCGAGGGAGGCAAGGCTTGT
* * * * * *
16929846 GTCTTTGATCTGCTTCGCTGTCTATGCAGGAAGGAAAGATCTGTTATCTTCAACCTGCTCCGCTA
1 GTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTA
*
16929911 CAACCGAGGGAGGCAAGGCTCGT
66 CAACCGAGGGAGGCAAGGCTTGT
* * *
16929934 GTCTTTGATCTGCTTCACTATCATTGCAGGAAGGCAAGATCTGCTATCTTCA
1 GTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCA
16929986 CTTATCTGTT
Statistics
Matches: 269, Mismatches: 47, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
88 269 1.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.28
Consensus pattern (88 bp):
GTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTA
CAACCGAGGGAGGCAAGGCTTGT
Found at i:16929745 original size:44 final size:43
Alignment explanation
Indices: 16929628--16929850 Score: 121
Period size: 44 Copynumber: 5.1 Consensus size: 43
16929618 ATATCTACTA
* *
16929628 TCTTCAACCTACTCCACTACAACCGAGGGAGGCAAGGCTTGTG
1 TCTTCAACCTACTCCACTACAACCGAGGAAGGCAAGACTTGTG
* * * * * * *
16929671 TCTTCAATCTACTTCGCTGTCAA-TGCAGGAATGCAAGATTTGCTG
1 TCTTCAACCTACTCCACT-ACAACCG-AGGAAGGCAAGACTTG-TG
* * * *
16929716 TCTTCAACCTGCTCCACTACAACCGAGGAAGACAAGGCTTGTT
1 TCTTCAACCTACTCCACTACAACCGAGGAAGGCAAGACTTGTG
* * * * * * * *
16929759 TCTTCGATCC-GCTTCACTGTCGA-TGTAGGAAGGCAAGA-TTTTCCA
1 TCTTC-AACCTACTCCACT-ACAACCG-AGGAAGGCAAGACTTGT--G
* * * *
16929804 TCTTCAACTTGCTCCACTACAACCGAGGGAGGCAAGGCTTGTG
1 TCTTCAACCTACTCCACTACAACCGAGGAAGGCAAGACTTGTG
16929847 TCTT
1 TCTT
16929851 TGATCTGCTT
Statistics
Matches: 129, Mismatches: 39, Indels: 24
0.67 0.20 0.12
Matches are distributed among these distances:
43 37 0.29
44 59 0.46
45 33 0.26
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (43 bp):
TCTTCAACCTACTCCACTACAACCGAGGAAGGCAAGACTTGTG
Found at i:16932134 original size:26 final size:24
Alignment explanation
Indices: 16932105--16932155 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
16932095 TTTTCTTCCC
16932105 TCTTCTTTGATTTTGATTTTGATTTT
1 TCTTCTTT--TTTTGATTTTGATTTT
* *
16932131 TCTTCTTTTTTTGTTTTTTATTTT
1 TCTTCTTTTTTTGATTTTGATTTT
16932155 T
1 T
16932156 ATTTTGATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 15 0.65
26 8 0.35
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (24 bp):
TCTTCTTTTTTTGATTTTGATTTT
Found at i:16938967 original size:15 final size:15
Alignment explanation
Indices: 16938947--16938976 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16938937 TCAAATTATC
16938947 ATTTATAATTGTATA
1 ATTTATAATTGTATA
16938962 ATTTATAATTGTATA
1 ATTTATAATTGTATA
16938977 TATATGTAAA
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:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
ATTTATAATTGTATA
Found at i:16940194 original size:6 final size:6
Alignment explanation
Indices: 16940180--16940218 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
16940170 CGAAATGGAG
* * *
16940180 AATGGA AATGAA AATGAA GATGAA AATGAA GATGAA AAT
1 AATGAA AATGAA AATGAA AATGAA AATGAA AATGAA AAT
16940219 TTGCAATCCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.59, C:0.00, G:0.23, T:0.18
Consensus pattern (6 bp):
AATGAA
Found at i:16940202 original size:12 final size:12
Alignment explanation
Indices: 16940187--16940218 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
16940177 GAGAATGGAA
16940187 ATGAAAATGAAG
1 ATGAAAATGAAG
16940199 ATGAAAATGAAG
1 ATGAAAATGAAG
16940211 ATGAAAAT
1 ATGAAAAT
16940219 TTGCAATCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.19
Consensus pattern (12 bp):
ATGAAAATGAAG
Found at i:16940397 original size:26 final size:26
Alignment explanation
Indices: 16940361--16940434 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 26
16940351 ATATTTTCTT
*
16940361 AAAATTTTACCAAGGA-CAAATTCGTC
1 AAAATTTTACCAAGGATAAAATT-GTC
*
16940387 AAAATTTTACCAAGAATAAAATTGTC
1 AAAATTTTACCAAGGATAAAATTGTC
* *
16940413 AAAATTTTACTAAGGGTAAAAT
1 AAAATTTTACCAAGGATAAAAT
16940435 AAGAATGTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 37 0.88
27 5 0.12
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (26 bp):
AAAATTTTACCAAGGATAAAATTGTC
Found at i:16951066 original size:30 final size:29
Alignment explanation
Indices: 16951032--16951131 Score: 110
Period size: 30 Copynumber: 3.4 Consensus size: 29
16951022 AAAATTTACT
**
16951032 AATTACATTTTGGCCCCCAGTTTTTTCTAA
1 AATTACATTTTGG-CCCCAACTTTTTCTAA
*
16951062 AATTACATTTTGGCCCTAACTTTTTCTAA
1 AATTACATTTTGGCCCCAACTTTTTCTAA
** * * *
16951091 AATTACATTTTAACCCTTAACTTCTCCTAA
1 AATTACATTTTGGCCC-CAACTTTTTCTAA
16951121 AATTACATTTT
1 AATTACATTTT
16951132 TGACCTCTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
29 27 0.44
30 35 0.56
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.44
Consensus pattern (29 bp):
AATTACATTTTGGCCCCAACTTTTTCTAA
Found at i:16951095 original size:29 final size:29
Alignment explanation
Indices: 16951053--16951156 Score: 127
Period size: 29 Copynumber: 3.4 Consensus size: 29
16951043 GGCCCCCAGT
* *
16951053 TTTTTCTAAAATTACATTTTGGCCCTAAC
1 TTTTCCTAAAATTACATTTTGACCCTAAC
* *
16951082 TTTTTCTAAAATTACATTTTAACCCTTAAC
1 TTTTCCTAAAATTACATTTTGACCC-TAAC
*
16951112 TTCTCCTAAAATTACATTTTTGACCTCTAAAC
1 TTTTCCTAAAATTACA-TTTTGACC-CT-AAC
16951144 TTTTCCTAAAATT
1 TTTTCCTAAAATT
16951157 TTGTTTTGAC
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
29 23 0.35
30 18 0.28
31 8 0.12
32 16 0.25
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.45
Consensus pattern (29 bp):
TTTTCCTAAAATTACATTTTGACCCTAAC
Done.