Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 63 of 199
Found at i:18761223 original size:26 final size:24
Alignment explanation
Indices: 18761186--18761268 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 24
18761176 ATTTTGATTT
* *
18761186 TTTTTATATTTAAAATGATTTTTTG
1 TTTTTAAATTT-AAATAATTTTTTG
*
18761211 TTTTTAAATTTTAAATAATTTTTTCA
1 TTTTTAAA-TTTAAATAATTTTTT-G
* **
18761237 TTTTTATACTTTAAATTTTTTTTATG
1 TTTTTA-AATTTAAATAATTTTT-TG
18761263 TTTTTA
1 TTTTTA
18761269 TTTAAAATGT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
25 18 0.38
26 27 0.57
27 2 0.04
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (24 bp):
TTTTTAAATTTAAATAATTTTTTG
Found at i:18762591 original size:6 final size:6
Alignment explanation
Indices: 18762560--18762590 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
18762550 TATGGTTGTG
*
18762560 TTTATA TTTATA TTTATA TTTATA TATATA T
1 TTTATA TTTATA TTTATA TTTATA TTTATA T
18762591 AGTATAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TTTATA
Found at i:18764847 original size:30 final size:31
Alignment explanation
Indices: 18764797--18764858 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
18764787 TTGTACCAAC
*
18764797 ATATACACGTACCAAGATCAACATTTAGCATT
1 ATATACAC-TACCAAAATCAACATTTAGCATT
18764829 ATATACA-TACCAAAATCAACATTTAGCATT
1 ATATACACTACCAAAATCAACATTTAGCATT
18764859 CAACCAAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 22 0.76
32 7 0.24
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (31 bp):
ATATACACTACCAAAATCAACATTTAGCATT
Found at i:18772361 original size:72 final size:72
Alignment explanation
Indices: 18772244--18772385 Score: 266
Period size: 72 Copynumber: 2.0 Consensus size: 72
18772234 CCCCGCCGCT
*
18772244 ACACCCTATTCAATCTAACTATCTGCAGTGTTAAAAAGGGGTGTGTGAGGTCTTGTGAACTCAGT
1 ACACCCTATTCAATCTAACTATCTGCAGTGTTAAAAAGGGGTGTGTGAGCTCTTGTGAACTCAGT
18772309 GAATAGA
66 GAATAGA
*
18772316 ACACCCTATTCGATCTAACTATCTGCAGTGTTAAAAAGGGGTGTGTGAGCTCTTGTGAACTCAGT
1 ACACCCTATTCAATCTAACTATCTGCAGTGTTAAAAAGGGGTGTGTGAGCTCTTGTGAACTCAGT
18772381 GAATA
66 GAATA
18772386 TATAGGAAAG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (72 bp):
ACACCCTATTCAATCTAACTATCTGCAGTGTTAAAAAGGGGTGTGTGAGCTCTTGTGAACTCAGT
GAATAGA
Found at i:18788011 original size:3 final size:3
Alignment explanation
Indices: 18787998--18788093 Score: 90
Period size: 3 Copynumber: 31.3 Consensus size: 3
18787988 TTTAGTCCCG
* * *
18787998 TTA TT- TTA TTA TTA TTT TTA TTA TTA -AA TTAA TTA GCTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA -TTA TTA TTA
*
18788042 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTGCA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT--A -TTA TTA
18788090 TTA T
1 TTA T
18788094 GATCATTTAC
Statistics
Matches: 78, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
2 5 0.06
3 64 0.82
4 6 0.08
5 1 0.01
6 2 0.03
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:18788398 original size:16 final size:16
Alignment explanation
Indices: 18788377--18788412 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
18788367 ATATTTTATA
*
18788377 ATTTATGTATACATAT
1 ATTTATGTATACATAC
*
18788393 ATTTATGTCTACATAC
1 ATTTATGTATACATAC
18788409 ATTT
1 ATTT
18788413 TTTTAATTTT
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:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTTATGTATACATAC
Found at i:18791715 original size:24 final size:24
Alignment explanation
Indices: 18791683--18791730 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
18791673 TGCCTTTGAA
18791683 TCCTTATGGATGATTAAGTTTAAG
1 TCCTTATGGATGATTAAGTTTAAG
18791707 TCCTTATGGATGATTAAGTTTAAG
1 TCCTTATGGATGATTAAGTTTAAG
18791731 GAAGCTTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (24 bp):
TCCTTATGGATGATTAAGTTTAAG
Found at i:18794273 original size:15 final size:15
Alignment explanation
Indices: 18794235--18794276 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
18794225 TTAAAATAAG
*
18794235 TAAT-TATTTTAATT
1 TAATATATTTTTATT
18794249 TAATAT-TTTTTATT
1 TAATATATTTTTATT
*
18794263 TATTATATTTTTAT
1 TAATATATTTTTAT
18794277 ATATAGTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TAATATATTTTTATT
Found at i:18796986 original size:21 final size:20
Alignment explanation
Indices: 18796953--18796991 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18796943 TTTTTATATA
*
18796953 TTTTTAAATATAATAATTAT
1 TTTTTAAATATAAAAATTAT
*
18796973 TTTTTAATTCATAAAAATT
1 TTTTTAAAT-ATAAAAATT
18796992 CAATAACTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTTAAATATAAAAATTAT
Found at i:18797218 original size:27 final size:27
Alignment explanation
Indices: 18797154--18797218 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
18797144 GGTCGAGGGT
*
18797154 CTGCCACAGGCGGCACCAAAGGTGCCA
1 CTGCCACAGGCAGCACCAAAGGTGCCA
* * *
18797181 GTGGCAGAGGCAGCACCAAAGGTGCCA
1 CTGCCACAGGCAGCACCAAAGGTGCCA
18797208 CTGCCACAGGC
1 CTGCCACAGGC
18797219 GACACCTGTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.26, C:0.34, G:0.32, T:0.08
Consensus pattern (27 bp):
CTGCCACAGGCAGCACCAAAGGTGCCA
Found at i:18797327 original size:3 final size:3
Alignment explanation
Indices: 18797294--18797355 Score: 76
Period size: 3 Copynumber: 21.3 Consensus size: 3
18797284 TCAGCTGCAC
* *
18797294 GAA GGA GAA GAAA GAA -AA GAA -AA GGA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
18797338 GAA GAA GAA GAA -AA GAA G
1 GAA GAA GAA GAA GAA GAA G
18797356 GAGGAGGAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 6 0.12
3 42 0.82
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:18797427 original size:21 final size:20
Alignment explanation
Indices: 18797394--18797432 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
18797384 TGCCGGAAAA
18797394 AGAAAAGAAAAAGAGAGAACG
1 AGAAAAGAAAAAG-GAGAACG
* *
18797415 AGAATAGAGAAAGGAGAA
1 AGAAAAGAAAAAGGAGAA
18797433 AGAAAGAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.64, C:0.03, G:0.31, T:0.03
Consensus pattern (20 bp):
AGAAAAGAAAAAGGAGAACG
Found at i:18797670 original size:41 final size:41
Alignment explanation
Indices: 18797544--18797683 Score: 149
Period size: 41 Copynumber: 3.3 Consensus size: 41
18797534 GTTAGTTTAG
* *
18797544 TTATTATTGTTAGTTATTAGGATTAATAAAAACCCTAATTA
1 TTATTATAGTTAGTTATTAGGATTAGTAAAAACCCTAATTA
* * * *
18797585 TTATTTTAGTTTGTATTATTATTG-TTAGTAAAAA-ACTAATATTA
1 TTATTATAGTTAG--TTATTA-GGATTAGTAAAAACCCT-A-ATTA
*
18797629 TTATTATGGTTAGTTATTAGGATTAGTAAAAACCCTAATTA
1 TTATTATAGTTAGTTATTAGGATTAGTAAAAACCCTAATTA
*
18797670 TTATTTTAGTTAGT
1 TTATTATAGTTAGT
18797684 ATGATTGTTA
Statistics
Matches: 79, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
41 27 0.34
42 19 0.24
43 18 0.23
44 15 0.19
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (41 bp):
TTATTATAGTTAGTTATTAGGATTAGTAAAAACCCTAATTA
Found at i:18797731 original size:76 final size:76
Alignment explanation
Indices: 18797631--18797771 Score: 212
Period size: 76 Copynumber: 1.9 Consensus size: 76
18797621 TAATATTATT
18797631 ATTATGGTTAGTTATTAGGATTAGTAAAAACCCTAATTATTATT-TTAGTTAGTATGATTGTTAG
1 ATTATGGTTAGTTATTAGGATTAGT-AAAACCCTAATTATTATTGTTAGTTAGTATGATTGTTAG
18797695 TTTTTACACTAC
65 TTTTTACACTAC
* *** * *
18797707 ATTATTGTTAGTTATTATTTTTAGTAAAACCCTAATTATTATTGTTAGTTAGTATTATTTTTAGT
1 ATTATGGTTAGTTATTAGGATTAGTAAAACCCTAATTATTATTGTTAGTTAGTATGATTGTTAGT
18797772 AAAAAACTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
75 18 0.31
76 40 0.69
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.50
Consensus pattern (76 bp):
ATTATGGTTAGTTATTAGGATTAGTAAAACCCTAATTATTATTGTTAGTTAGTATGATTGTTAGT
TTTTACACTAC
Found at i:18797787 original size:76 final size:76
Alignment explanation
Indices: 18797544--18797812 Score: 272
Period size: 85 Copynumber: 3.4 Consensus size: 76
18797534 GTTAGTTTAG
* *
18797544 TTATTATTGTTAGTTATTAGGATTAATAAAAACCCTAATTATTATTTTAGTTTGTATTATTATTG
1 TTATTATTGTTAGTTATTAGGATTAGTAAAAACCCTAATTATTATTTTAGTTAGTATTA-T-TT-
18797609 TTAGTAAAAAACTAATA
63 TTAGTAAAAAAC---TA
* *
18797626 TTATTATTATGGTTAGTTATTAGGATTAGTAAAAACCCTAATTATTATTTTAGTTAGTATGATTG
1 TTATTA-T-T-GTTAGTTATTAGGATTAGTAAAAACCCTAATTATTATTTTAGTTAGTATTATTT
*** *
18797691 TTAGTTTTTACACTA
63 TTAG-TAAAAAACTA
* ***
18797706 -CATTATTGTTAGTTATTATTTTTAGT-AAAACCCTAATTATTATTGTTAGTTAGTATTATTTTT
1 TTATTATTGTTAGTTATTAGGATTAGTAAAAACCCTAATTATTATT-TTAGTTAGTATTATTTTT
18797769 AGTAAAAAACTATTA
65 AGTAAAAAAC---TA
18797784 TTATTATTGTGTTAGTTATTAGGATTAGT
1 TTATTA-T-TGTTAGTTATTAGGATTAGT
18797813 GGTTAAATGT
Statistics
Matches: 154, Mismatches: 22, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
75 22 0.14
76 34 0.22
77 1 0.01
78 3 0.02
79 8 0.05
80 3 0.02
81 17 0.11
82 10 0.06
83 6 0.04
84 2 0.01
85 48 0.31
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.49
Consensus pattern (76 bp):
TTATTATTGTTAGTTATTAGGATTAGTAAAAACCCTAATTATTATTTTAGTTAGTATTATTTTTA
GTAAAAAACTA
Found at i:18797798 original size:40 final size:40
Alignment explanation
Indices: 18797544--18797804 Score: 137
Period size: 40 Copynumber: 6.5 Consensus size: 40
18797534 GTTAGTTTAG
* *** * *
18797544 TTATTATTGTTAGTTATTAGGATTAATAAAAACCCTAATTA
1 TTATTGTTGTTAGTTATTATTTTTAGTAAAAA-ACTAATTA
* *
18797585 TTATT-TTAGTTTGTATTATTATTGTTAGTAAAAAACTAATATTA
1 TTATTGTT-GTTAG--TTATTATTTTTAGTAAAAAACT-A-ATTA
* * *** *
18797629 TTATTATGGTTAGTTATTAGGATTAGTAAAAACCCTAATTA
1 TTATTGTTGTTAGTTATTATTTTTAGTAAAAA-ACTAATTA
* * *** * *
18797670 TTATT-TTAGTTAG-TATGATTGTTAGTTTTTACACT-A-CA
1 TTATTGTT-GTTAGTTATTATTTTTAG-TAAAAAACTAATTA
**
18797708 TTA---TTGTTAGTTATTATTTTTAGTAAAACCCTAATTA
1 TTATTGTTGTTAGTTATTATTTTTAGTAAAAAACTAATTA
18797745 TTATTGTTAGTTAG-TATTATTTTTAGTAAAAAACTATTATTA
1 TTATTGTT-GTTAGTTATTATTTTTAGTAAAAAACTA--ATTA
18797787 TTATTG-TGTTAGTTATTA
1 TTATTGTTGTTAGTTATTA
18797805 GGATTAGTGG
Statistics
Matches: 169, Mismatches: 32, Indels: 38
0.71 0.13 0.16
Matches are distributed among these distances:
35 10 0.06
36 13 0.08
37 4 0.02
38 4 0.02
39 1 0.01
40 40 0.24
41 36 0.21
42 29 0.17
43 18 0.11
44 13 0.08
45 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (40 bp):
TTATTGTTGTTAGTTATTATTTTTAGTAAAAAACTAATTA
Found at i:18800282 original size:5 final size:5
Alignment explanation
Indices: 18800274--18800340 Score: 52
Period size: 5 Copynumber: 13.6 Consensus size: 5
18800264 ATTTAAAATA
* *
18800274 TATAT TATAT TATAT T-TACT TA-AT TA-AT AAGTAT GT-TAT TTTAT
1 TATAT TATAT TATAT TATA-T TATAT TATAT TA-TAT -TATAT TATAT
*
18800318 TATAT AATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TAT
18800341 TATATATATA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
4 9 0.18
5 40 0.78
6 2 0.04
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:18800333 original size:15 final size:15
Alignment explanation
Indices: 18800310--18800351 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
18800300 ATAAGTATGT
*
18800310 TATTTTATTATATAA
1 TATTATATTATATAA
18800325 TATTATATTATAT--
1 TATTATATTATATAA
18800338 TATTATA-TATATAA
1 TATTATATTATATAA
18800352 AAAAACAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 5 0.21
13 7 0.29
15 12 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTATATTATATAA
Found at i:18801444 original size:25 final size:25
Alignment explanation
Indices: 18801416--18801550 Score: 133
Period size: 25 Copynumber: 5.6 Consensus size: 25
18801406 ACTTTAGCGC
*
18801416 GCTCTCTGATTATTATCACGTTGGT
1 GCTCTCTGATTATTAGCACGTTGGT
18801441 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACGTTGGT
**
18801466 GCTCTCTGA-TATTTAGCACGTCAGT
1 GCTCTCTGATTA-TTAGCACGTTGGT
* *
18801491 GCTCTCTG--T-TTAGCACATTTGT
1 GCTCTCTGATTATTAGCACGTTGGT
* *
18801513 GCTCTCTG--TA-TAGCACTTTAGT
1 GCTCTCTGATTATTAGCACGTTGGT
18801535 GCTCTCTG-TTCATTAG
1 GCTCTCTGATT-ATTAG
18801551 TGCATAATAA
Statistics
Matches: 97, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
22 37 0.38
23 1 0.01
24 4 0.04
25 55 0.57
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.41
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTTGGT
Found at i:18801493 original size:50 final size:49
Alignment explanation
Indices: 18801416--18801550 Score: 147
Period size: 50 Copynumber: 2.8 Consensus size: 49
18801406 ACTTTAGCGC
* * *
18801416 GCTCTCTGAT-TATTATCACGTTGGTGCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATAT-TTAGCACGTTAGTGCTCTCTG-TTATTAGCACATTGGT
* *
18801466 GCTCTCTGATATTTAGCACGTCAGTGCTCTCTG-T-TTAGCACATTTGT
1 GCTCTCTGATATTTAGCACGTTAGTGCTCTCTGTTATTAGCACATTGGT
*
18801513 GCTCTCTG-TA--TAGCACTTTAGTGCTCTCTGTTCATTAG
1 GCTCTCTGATATTTAGCACGTTAGTGCTCTCTGTT-ATTAG
18801551 TGCATAATAA
Statistics
Matches: 74, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
44 18 0.24
45 1 0.01
46 2 0.03
47 23 0.31
48 1 0.01
50 28 0.38
51 1 0.01
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.41
Consensus pattern (49 bp):
GCTCTCTGATATTTAGCACGTTAGTGCTCTCTGTTATTAGCACATTGGT
Found at i:18801505 original size:22 final size:22
Alignment explanation
Indices: 18801432--18801544 Score: 109
Period size: 22 Copynumber: 4.9 Consensus size: 22
18801422 TGATTATTAT
*
18801432 CACGTTGGTGCTCTCTGATTATTAG
1 CACGTTAGTGCTCTCTG--T-TTAG
*
18801457 CACGTTGGTGCTCTCTGATATTTAG
1 CACGTTAGTGCTCTCTG---TTTAG
*
18801482 CACGTCAGTGCTCTCTGTTTAG
1 CACGTTAGTGCTCTCTGTTTAG
* * *
18801504 CACATTTGTGCTCTCTGTATAG
1 CACGTTAGTGCTCTCTGTTTAG
*
18801526 CACTTTAGTGCTCTCTGTT
1 CACGTTAGTGCTCTCTGTT
18801545 CATTAGTGCA
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
22 39 0.51
25 36 0.47
26 1 0.01
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (22 bp):
CACGTTAGTGCTCTCTGTTTAG
Found at i:18808965 original size:156 final size:159
Alignment explanation
Indices: 18808694--18809202 Score: 792
Period size: 156 Copynumber: 3.2 Consensus size: 159
18808684 GATTTTTCTT
18808694 ATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATA
1 ATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATA
* *
18808759 AAGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGT-AAAAACCCCTTATTTTGG
66 ATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCCTTATTTTGG
18808823 CCATTTGTTCGTATTTTTCTTATTTTCGG
131 CCATTTGTTCGTATTTTTCTTATTTTCGG
* *
18808852 ATTTTATTACTTTC-AAAAA-ATGTTATTTTCATATTTTCA-TATTTTATATTATTTTAGTACAT
1 ATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTT-ATTATTTTATATTATTTTAGTACAT
*
18808914 AATGTTTGAAATGTATTATTTTAGTGT-ATTTTTATATAAATTTAGTAAAAAA-CCCTTATTTTG
65 AATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCCTTATTTTG
*
18808977 GCCATTTGTTCGTATTTTT-TTATTTTCAG
130 GCCATTTGTTCGTATTTTTCTTATTTTCGG
18809006 ATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATA
1 ATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATA
18809071 ATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCCTTATTTTCG
66 ATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCCTTATTTT-G
* *
18809136 GCCCTTTG-TCGT-TATTTTC--CTTTTCGG
130 GCCATTTGTTCGTAT-TTTTCTTATTTTCGG
*
18809163 TATTTTATTACTTTCAAGTAAATATACTTA-TTTC-TATTTT
1 -ATTTTATTACTTTCAA-AAAATATA-TTATTTTCGTATTTT
18809203 TATTTCTTTC
Statistics
Matches: 325, Mismatches: 13, Indels: 26
0.89 0.04 0.07
Matches are distributed among these distances:
154 23 0.07
155 54 0.17
156 135 0.42
157 37 0.11
158 54 0.17
159 19 0.06
160 3 0.01
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.54
Consensus pattern (159 bp):
ATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATA
ATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCCTTATTTTGG
CCATTTGTTCGTATTTTTCTTATTTTCGG
Found at i:18809298 original size:17 final size:16
Alignment explanation
Indices: 18809270--18809303 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
18809260 ACTTATTTTT
*
18809270 AAATAAAAAAATTCGA
1 AAATAAAAAAATACGA
18809286 AAATAAGAAAAATACGA
1 AAATAA-AAAAATACGA
18809303 A
1 A
18809304 TAAAGGGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.71, C:0.06, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAAATACGA
Found at i:18809358 original size:27 final size:27
Alignment explanation
Indices: 18809311--18809370 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
18809301 GAATAAAGGG
* * * *
18809311 GGTGCCGCCTGTGGCAGTGGCACCTTT
1 GGTGCCGCCTCTGCCACTGGCACCATT
18809338 GGTGCCGCCTCTGCCACTGGCACCATT
1 GGTGCCGCCTCTGCCACTGGCACCATT
18809365 GGTGCC
1 GGTGCC
18809371 ACCTGTGGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.08, C:0.35, G:0.33, T:0.23
Consensus pattern (27 bp):
GGTGCCGCCTCTGCCACTGGCACCATT
Found at i:18809596 original size:12 final size:12
Alignment explanation
Indices: 18809565--18809620 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
18809555 TAGAATGTAC
18809565 ATAACATAAATA
1 ATAACATAAATA
18809577 ATAAAACATAAATA
1 AT--AACATAAATA
18809591 ATAAC---AATA
1 ATAACATAAATA
*
18809600 ATAACATTAATA
1 ATAACATAAATA
*
18809612 ATAAAATAA
1 ATAACATAA
18809621 TAAGACATAG
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 9 0.24
12 16 0.43
14 12 0.32
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (12 bp):
ATAACATAAATA
Found at i:18809651 original size:30 final size:30
Alignment explanation
Indices: 18809615--18809685 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
18809605 ATTAATAATA
* * *
18809615 AAATAATAAGACATAGTATGAACATAACAT
1 AAATAATAAAACATAGAATGAACAAAACAT
*
18809645 AAATAATAAAACATAGAATGTACAAAACAT
1 AAATAATAAAACATAGAATGAACAAAACAT
18809675 AAA-AATTAAAA
1 AAATAA-TAAAA
18809686 TTAAATTATG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 2 0.06
30 34 0.94
ACGTcount: A:0.63, C:0.08, G:0.07, T:0.21
Consensus pattern (30 bp):
AAATAATAAAACATAGAATGAACAAAACAT
Found at i:18810978 original size:3 final size:3
Alignment explanation
Indices: 18810970--18811054 Score: 52
Period size: 3 Copynumber: 29.3 Consensus size: 3
18810960 CTTCCCTCCC
* * * * * * *
18810970 TCT TCT TCT TCT CCT TC- TCT TTT TCT TCCT TCT GCG CCT CCT TCC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT TCT TCT TCT
* *
18811015 CCT TCT TTT TCT TC- TCT TC- TCT TCT TCT T-T TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
18811055 TCCTGCAGCT
Statistics
Matches: 62, Mismatches: 15, Indels: 10
0.71 0.17 0.11
Matches are distributed among these distances:
2 8 0.13
3 51 0.82
4 3 0.05
ACGTcount: A:0.00, C:0.38, G:0.02, T:0.60
Consensus pattern (3 bp):
TCT
Found at i:18811055 original size:11 final size:11
Alignment explanation
Indices: 18811016--18811055 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
18811006 CCTCCTTCCC
18811016 CTTCTTTTTCTT
1 CTTC-TTTTCTT
*
18811028 C-TCTTCTCTT
1 CTTCTTTTCTT
18811038 CTTCTTTTCTT
1 CTTCTTTTCTT
18811049 CTTCTTT
1 CTTCTTT
18811056 CCTGCAGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 7 0.28
11 17 0.68
12 1 0.04
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
CTTCTTTTCTT
Found at i:18822159 original size:2 final size:2
Alignment explanation
Indices: 18822152--18822197 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
18822142 TAAAACCATA
*
18822152 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18822194 AT AT
1 AT AT
18822198 CATAATAAGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18823112 original size:31 final size:32
Alignment explanation
Indices: 18823066--18823127 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
18823056 CCAATAATAA
*
18823066 TGACTATTTCAGTTCCCAAATATGAAAACAAG
1 TGACTATTTCAGTTCCCAAATATAAAAACAAG
* *
18823098 TGACTGTTTC-GTTCCCAAATCTAAAAACAA
1 TGACTATTTCAGTTCCCAAATATAAAAACAA
18823128 ATAAGGTTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (32 bp):
TGACTATTTCAGTTCCCAAATATAAAAACAAG
Found at i:18823865 original size:61 final size:59
Alignment explanation
Indices: 18823794--18823947 Score: 170
Period size: 61 Copynumber: 2.6 Consensus size: 59
18823784 TTGTAATAAG
* * *
18823794 ATTATTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAATCATATT-TTAACATA
1 ATTATAATTAAATATAATTTAATAAAAAT---AATAAATAATTTAATAACATTCTTAACATA
* * *
18823855 ATTATCATTAAATATAATTTAAT-AAAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATAATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTCTTAACATA
* *
18823913 ATTATTAATAAAATATGAA-TTAATAAAAATCATAA
1 ATTA-TAATTAAATAT-AATTTAATAAAAATAATAA
18823948 TATATAAAAT
Statistics
Matches: 80, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
57 18 0.22
58 11 0.14
59 14 0.17
60 15 0.19
61 22 0.28
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (59 bp):
ATTATAATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTCTTAACATA
Found at i:18827810 original size:87 final size:87
Alignment explanation
Indices: 18827705--18827880 Score: 352
Period size: 87 Copynumber: 2.0 Consensus size: 87
18827695 AATCAAAATG
18827705 ATAAAACATATACAACATAATGGTGACTAACAGTCTTTTTGGTCGGCAAGACCAAGATTCTGAAT
1 ATAAAACATATACAACATAATGGTGACTAACAGTCTTTTTGGTCGGCAAGACCAAGATTCTGAAT
18827770 GCAATGGAACATGACATTTCAA
66 GCAATGGAACATGACATTTCAA
18827792 ATAAAACATATACAACATAATGGTGACTAACAGTCTTTTTGGTCGGCAAGACCAAGATTCTGAAT
1 ATAAAACATATACAACATAATGGTGACTAACAGTCTTTTTGGTCGGCAAGACCAAGATTCTGAAT
18827857 GCAATGGAACATGACATTTCAA
66 GCAATGGAACATGACATTTCAA
18827879 AT
1 AT
18827881 TTGTAGTAGC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 89 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (87 bp):
ATAAAACATATACAACATAATGGTGACTAACAGTCTTTTTGGTCGGCAAGACCAAGATTCTGAAT
GCAATGGAACATGACATTTCAA
Found at i:18829503 original size:20 final size:21
Alignment explanation
Indices: 18829468--18829508 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
18829458 AACTTCAAAA
18829468 AATTATTTTAATATAT-TTTT
1 AATTATTTTAATATATCTTTT
18829488 AATT-TTTTAATCATATCTTTT
1 AATTATTTTAAT-ATATCTTTT
18829509 TACAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 8 0.42
21 4 0.21
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
AATTATTTTAATATATCTTTT
Found at i:18831427 original size:11 final size:12
Alignment explanation
Indices: 18831413--18831441 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
18831403 TATTTTTTAA
18831413 TTTTAAAATA-T
1 TTTTAAAATACT
18831424 TTTTAAAATACT
1 TTTTAAAATACT
18831436 TTTTAA
1 TTTTAA
18831442 TTTTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTTAAAATACT
Found at i:18831439 original size:29 final size:30
Alignment explanation
Indices: 18831406--18831488 Score: 87
Period size: 29 Copynumber: 2.7 Consensus size: 30
18831396 TTTTTTTTAT
*
18831406 TTTTTAATTTTAAAATATTTTTAAAATA-C
1 TTTTTAATTTTAAAATAATTTTAAAATATC
**** *
18831435 TTTTTAATTTTTTTTTAATTTTAAAATATT
1 TTTTTAATTTTAAAATAATTTTAAAATATC
18831465 TTTTTAATTTTTAAAATAAATTTT
1 TTTTTAA-TTTTAAAAT-AATTTT
18831489 TGGTATTTAT
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
29 23 0.56
30 7 0.17
31 5 0.12
32 6 0.15
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (30 bp):
TTTTTAATTTTAAAATAATTTTAAAATATC
Found at i:18831468 original size:41 final size:41
Alignment explanation
Indices: 18831357--18831467 Score: 169
Period size: 40 Copynumber: 2.8 Consensus size: 41
18831347 AATATATTTA
18831357 TTTTTAA--TTTTTTTAATTTTAAAATA-TTTTAAAATAAC
1 TTTTTAATTTTTTTTTAATTTTAAAATATTTTTAAAATAAC
*
18831395 TTTTT-TTTTATTTTTTAATTTTAAAATATTTTTAAAAT-AC
1 TTTTTAATTT-TTTTTTAATTTTAAAATATTTTTAAAATAAC
18831435 TTTTTAATTTTTTTTTAATTTTAAAATATTTTT
1 TTTTTAATTTTTTTTTAATTTTAAAATATTTTT
18831468 TTAATTTTTA
Statistics
Matches: 66, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
38 5 0.08
39 1 0.02
40 48 0.73
41 12 0.18
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (41 bp):
TTTTTAATTTTTTTTTAATTTTAAAATATTTTTAAAATAAC
Found at i:18831488 original size:19 final size:19
Alignment explanation
Indices: 18831447--18831488 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
18831437 TTTAATTTTT
**
18831447 TTTTAATTTTAAAATATTT
1 TTTTAATTTTAAAATATAA
18831466 TTTTAATTTTTAAAATA-AA
1 TTTTAA-TTTTAAAATATAA
18831485 TTTT
1 TTTT
18831489 TGGTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAATTTTAAAATATAA
Found at i:18831488 original size:20 final size:19
Alignment explanation
Indices: 18831446--18831489 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
18831436 TTTTAATTTT
**
18831446 TTTTTAATTTTAAAATATT
1 TTTTTAATTTTAAAATAAA
18831465 TTTTTAATTTTTAAAATAAA
1 TTTTTAA-TTTTAAAATAAA
18831485 TTTTT
1 TTTTT
18831490 GGTATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTAATTTTAAAATAAA
Found at i:18831489 original size:40 final size:39
Alignment explanation
Indices: 18831365--18831489 Score: 110
Period size: 40 Copynumber: 3.2 Consensus size: 39
18831355 TATTTTTAAT
*** *
18831365 TTTTTTAATTTTAAAATA-TTTTAAAATAACTTTTTTTTTA
1 TTTTTTAATTTTAAAATATTTTTAAAAT-A-TTTTAAATAA
* **
18831405 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTAATTT
1 TTTTTTAATTTTAAAATATTTTTAAAATA-TTTTAAATAA
**
18831445 TTTTTTAATTTTAAAATATTTTTTTAAT-TTTTAAAATAA
1 TTTTTTAATTTTAAAATATTTTTAAAATATTTT-AAATAA
*
18831484 ATTTTT
1 TTTTTT
18831490 GGTATTTATT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
38 4 0.05
39 8 0.11
40 53 0.72
41 9 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (39 bp):
TTTTTTAATTTTAAAATATTTTTAAAATATTTTAAATAA
Found at i:18836941 original size:5 final size:5
Alignment explanation
Indices: 18836931--18836955 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18836921 ATCATTGATG
18836931 AGAAA AGAAA AGAAA AGAAA AGAAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA
18836956 TGTATGATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:18839136 original size:25 final size:25
Alignment explanation
Indices: 18839095--18839151 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
18839085 ACAATCCATG
** * *
18839095 TAAATCATGTATTTCATGTAACTTT
1 TAAATCATGTAAATCATATAACATT
18839120 TAAATCATGTAAATCATATAACATT
1 TAAATCATGTAAATCATATAACATT
*
18839145 TATATCA
1 TAAATCA
18839152 ATTCTTTCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (25 bp):
TAAATCATGTAAATCATATAACATT
Found at i:18839443 original size:23 final size:23
Alignment explanation
Indices: 18839412--18839479 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
18839402 TCGAGCTGAT
18839412 AAACAGTAAGCTCTATAGAGCTG
1 AAACAGTAAGCTCTATAGAGCTG
* *
18839435 AAACGGTAAGCTCCATAGAGCTG
1 AAACAGTAAGCTCTATAGAGCTG
18839458 AAACAGTAAGCTC-ATACGAGCT
1 AAACAGTAAGCTCTATA-GAGCT
18839480 ATGGTGAGTC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 3 0.07
23 38 0.93
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (23 bp):
AAACAGTAAGCTCTATAGAGCTG
Found at i:18844496 original size:7 final size:7
Alignment explanation
Indices: 18844484--18844528 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
18844474 ACAAAGGAAC
18844484 AAAAAGA
1 AAAAAGA
18844491 AAAAAGA
1 AAAAAGA
18844498 AAAAAGA
1 AAAAAGA
18844505 AAAAA-A
1 AAAAAGA
* *
18844511 ACAAACA
1 AAAAAGA
*
18844518 AACAAGA
1 AAAAAGA
18844525 AAAA
1 AAAA
18844529 TACTAGCTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
6 5 0.16
7 27 0.84
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:18844899 original size:39 final size:38
Alignment explanation
Indices: 18844808--18844900 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 38
18844798 TTTTTGAATA
18844808 TTCTT-TAATTTTTTTTCAAAATTTTTTTCTTTTCTTT
1 TTCTTGTAATTTTTTTTCAAAATTTTTTTCTTTTCTTT
* *
18844845 TTCTTTTCAACTTTTTTTCAAAATTTCTTTT-TCTTT-TTT
1 TTCTTGT-AATTTTTTTTCAAAATTT-TTTTCT-TTTCTTT
18844884 TTCTTCGTAATTTTTTT
1 TTCTT-GTAATTTTTTT
18844901 CATTTTTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
37 5 0.10
38 1 0.02
39 34 0.71
40 8 0.17
ACGTcount: A:0.15, C:0.13, G:0.01, T:0.71
Consensus pattern (38 bp):
TTCTTGTAATTTTTTTTCAAAATTTTTTTCTTTTCTTT
Found at i:18847687 original size:14 final size:13
Alignment explanation
Indices: 18847668--18847725 Score: 57
Period size: 14 Copynumber: 4.5 Consensus size: 13
18847658 CAAACAAACG
*
18847668 AAAAATTAAAATGT
1 AAAAATAAAAAT-T
*
18847682 AAAAAT-GAAATT
1 AAAAATAAAAATT
18847694 AAAAATAAAAATAT
1 AAAAATAAAAAT-T
*
18847708 TAAAATAAAAA-T
1 AAAAATAAAAATT
18847720 AAAAAT
1 AAAAAT
18847726 GGCTAAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
12 13 0.34
13 8 0.21
14 17 0.45
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
AAAAATAAAAATT
Found at i:18847704 original size:6 final size:6
Alignment explanation
Indices: 18847681--18847725 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
18847671 AATTAAAATG
* *
18847681 TAAAAA TGAAAT TAAAAA TAAAAA TATTAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TA--AAAA TAAAAA TAAAAA T
18847726 GGCTAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (6 bp):
TAAAAA
Found at i:18847704 original size:26 final size:26
Alignment explanation
Indices: 18847668--18847725 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
18847658 CAAACAAACG
* * * *
18847668 AAAAATTAAAATGTAAAAATGAAATT
1 AAAAATAAAAATATAAAAATAAAAAT
*
18847694 AAAAATAAAAATATTAAAATAAAAAT
1 AAAAATAAAAATATAAAAATAAAAAT
18847720 AAAAAT
1 AAAAAT
18847726 GGCTAAATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (26 bp):
AAAAATAAAAATATAAAAATAAAAAT
Found at i:18852041 original size:71 final size:71
Alignment explanation
Indices: 18851904--18852065 Score: 227
Period size: 71 Copynumber: 2.3 Consensus size: 71
18851894 TTGTGGATTC
* * *
18851904 TTCACAGCTTGTGTAAGCAACATCATGTAAAGTTACCATCCCGACTCACAACTCATGTGACTAGG
1 TTCACAGCTCGTGTGAGCAAAATCATGTAAAGTTACCATCCCGACTCACAACTCATGTGACTAGG
18851969 CTTATT
66 CTTATT
* * *
18851975 TTCATAGCTCGTGTGAGCAAAATCATGTAAAGTTACCATCCCGATTCACAACTCGTGTGAGC-AG
1 TTCACAGCTCGTGTGAGCAAAATCATGTAAAGTTACCATCCCGACTCACAACTCATGTGA-CTAG
18852039 GCTTATT
65 GCTTATT
* * *
18852046 CTCAGAACTCGTGTGAGCAA
1 TTCACAGCTCGTGTGAGCAA
18852066 CCTTATCTCA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
71 80 0.99
72 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (71 bp):
TTCACAGCTCGTGTGAGCAAAATCATGTAAAGTTACCATCCCGACTCACAACTCATGTGACTAGG
CTTATT
Found at i:18852070 original size:27 final size:26
Alignment explanation
Indices: 18852024--18852075 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
18852014 CCCGATTCAC
**
18852024 AACTCGTGTGAGCAGGCTTATTCTCAG
1 AACTCGTGTGAGCAACCTTA-TCTCAG
18852051 AACTCGTGTGAGCAACCTTATCTCA
1 AACTCGTGTGAGCAACCTTATCTCA
18852076 TGTGTCCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (26 bp):
AACTCGTGTGAGCAACCTTATCTCAG
Found at i:18852686 original size:24 final size:24
Alignment explanation
Indices: 18852650--18852709 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
18852640 TGCCAAAAGA
18852650 TTTCCA-TACTTAGCTACATTATG
1 TTTCCATTACTTAGCTACATTATG
18852673 TTTCCATTACTTAGCTACATTATG
1 TTTCCATTACTTAGCTACATTATG
18852697 TTTCCATTACTTA
1 TTTCCATTACTTA
18852710 ATTGTTGATT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 6 0.17
24 30 0.83
ACGTcount: A:0.25, C:0.22, G:0.07, T:0.47
Consensus pattern (24 bp):
TTTCCATTACTTAGCTACATTATG
Found at i:18862356 original size:44 final size:44
Alignment explanation
Indices: 18862304--18862423 Score: 222
Period size: 44 Copynumber: 2.7 Consensus size: 44
18862294 TTATGATAGG
18862304 TAATATGTGAGAATACTTGTATGTGATATATGATGTACTTATTT
1 TAATATGTGAGAATACTTGTATGTGATATATGATGTACTTATTT
*
18862348 TAATATGTGAGAATACTTGTATGTGCTATATGATGTACTTATTT
1 TAATATGTGAGAATACTTGTATGTGATATATGATGTACTTATTT
*
18862392 TAATATGAGAGAATACTTGTATGTGATATATG
1 TAATATGTGAGAATACTTGTATGTGATATATG
18862424 TGGTTGGATA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 73 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (44 bp):
TAATATGTGAGAATACTTGTATGTGATATATGATGTACTTATTT
Found at i:18865391 original size:68 final size:68
Alignment explanation
Indices: 18865316--18865467 Score: 205
Period size: 68 Copynumber: 2.2 Consensus size: 68
18865306 TGTCATAGCT
*
18865316 GAGCTATGGTCTTACACCTTGTAACCCAATGTTTAACGTCCTGGCGGACTCTATTGGTTGCCATA
1 GAGCTATGGTCTTACACCTTGTAACCCAATGTTTAACGTCCTGGCAGACTCTATTGGTTGCCATA
**
18865381 GTC
66 ACC
* * * ** * * *
18865384 GGGCTATGTTCTTACACTTTGTAACCCCGTGTTTAATGTCCTGGTAGACTTTATTGGTTGCCATA
1 GAGCTATGGTCTTACACCTTGTAACCCAATGTTTAACGTCCTGGCAGACTCTATTGGTTGCCATA
18865449 ACC
66 ACC
18865452 GAGCTATGGTCTTACA
1 GAGCTATGGTCTTACA
18865468 TGTTGAACCT
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (68 bp):
GAGCTATGGTCTTACACCTTGTAACCCAATGTTTAACGTCCTGGCAGACTCTATTGGTTGCCATA
ACC
Found at i:18868151 original size:38 final size:38
Alignment explanation
Indices: 18868100--18868186 Score: 120
Period size: 38 Copynumber: 2.3 Consensus size: 38
18868090 TGGAATTGAA
* *
18868100 TATCTACTGGTCCTCCAGGGCGACACCGTGACGACTGT
1 TATCTAATGGTCCTCCAGGGCGACACCGTGACGACGGT
*** *
18868138 TATCTAATGGTCCTTTGGGGTGACACCGTGACGACGGT
1 TATCTAATGGTCCTCCAGGGCGACACCGTGACGACGGT
18868176 TATCTAATGGT
1 TATCTAATGGT
18868187 TCTTTGGGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.29
Consensus pattern (38 bp):
TATCTAATGGTCCTCCAGGGCGACACCGTGACGACGGT
Found at i:18868192 original size:38 final size:38
Alignment explanation
Indices: 18868121--18868243 Score: 140
Period size: 38 Copynumber: 3.2 Consensus size: 38
18868111 CCTCCAGGGC
* *
18868121 GACACCGTGACGACTGTTATCTAATGGTCCTTTGGGGT
1 GACACCGTGACGACAGTTATCTAATGGTTCTTTGGGGT
*
18868159 GACACCGTGACGACGGTTATCTAATGGTTCTTTGGGGT
1 GACACCGTGACGACAGTTATCTAATGGTTCTTTGGGGT
* ** * * * *
18868197 GATACTATGACAACAGTTATCTACTGG-TCTTATAGGGC
1 GACACCGTGACGACAGTTATCTAATGGTTCTT-TGGGGT
18868235 GACACCGTG
1 GACACCGTG
18868244 TAAACAATAT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
37 4 0.06
38 67 0.94
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (38 bp):
GACACCGTGACGACAGTTATCTAATGGTTCTTTGGGGT
Found at i:18869120 original size:40 final size:40
Alignment explanation
Indices: 18869060--18869208 Score: 203
Period size: 40 Copynumber: 3.7 Consensus size: 40
18869050 AATATTTTTA
* * *
18869060 TTTTTT-A-TTTTTTAACTTTAAAATACTTTTAAAATAAT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
*
18869098 TTTTTTAATTTTTTTAATTTTAAAATTTTTTTAAAATACT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
*
18869138 TTTTTTAATTTTTTAAATTTTAAAATATTTTTAAAATACT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
18869178 TTTTTTAATTTTTATTTTAATTTTTAAAATA
1 TTTTTTAA--TTT-TTTTAA-TTTTAAAATA
18869209 AATTTTTGGT
Statistics
Matches: 98, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
38 6 0.06
39 1 0.01
40 73 0.74
42 3 0.03
43 5 0.05
44 10 0.10
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (40 bp):
TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:18869151 original size:9 final size:9
Alignment explanation
Indices: 18869094--18869131 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
18869084 ACTTTTAAAA
18869094 TAATTTTTT
1 TAATTTTTT
18869103 TAATTTTTT
1 TAATTTTTT
*
18869112 TAA-TTTTA
1 TAATTTTTT
*
18869120 AAATTTTTT
1 TAATTTTTT
18869129 TAA
1 TAA
18869132 AATACTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
8 6 0.25
9 18 0.75
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TAATTTTTT
Found at i:18869175 original size:11 final size:11
Alignment explanation
Indices: 18869115--18869181 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
18869105 ATTTTTTTAA
*
18869115 TTTTAAAATTT
1 TTTTAAAATAT
18869126 TTTTAAAATACT
1 TTTTAAAATA-T
**
18869138 TTTTTTAAT-T
1 TTTTAAAATAT
18869148 TTTT--AA-A-
1 TTTTAAAATAT
18869155 TTTTAAAATAT
1 TTTTAAAATAT
18869166 TTTTAAAATACT
1 TTTTAAAATA-T
18869178 TTTT
1 TTTT
18869182 TTAATTTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
7 4 0.09
8 2 0.04
9 2 0.04
10 6 0.13
11 19 0.41
12 13 0.28
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:18874503 original size:45 final size:45
Alignment explanation
Indices: 18874439--18874529 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
18874429 GCAAGAACTT
*
18874439 AACTACTTTTTCCCTGAAAAACATGTGAACCCACTATTTTGCAAC
1 AACTACTTTTTCCCTGAAAAACATGTGAACCCAATATTTTGCAAC
18874484 AACTACTTTTTCCCTGAAAAACATGTGAACCCAATATTTTGCAAC
1 AACTACTTTTTCCCTGAAAAACATGTGAACCCAATATTTTGCAAC
18874529 A
1 A
18874530 CAATATACCT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (45 bp):
AACTACTTTTTCCCTGAAAAACATGTGAACCCAATATTTTGCAAC
Found at i:18887486 original size:50 final size:49
Alignment explanation
Indices: 18887350--18887699 Score: 450
Period size: 50 Copynumber: 7.0 Consensus size: 49
18887340 TTTCCTGTAC
* * ** *
18887350 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * **
18887399 ATGCCCATGCCATGT-CCAGACATGGTCTGACGGGGGACCTCTCATCTCAG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC-G
*
18887449 TTCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC-G
* *
18887499 TGCCAATGCCATGTCCCAGACATGGTCTTACATGTGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATC-TCG
* * * *
18887549 TGCCAACGCCATGTCTCAGACATGGTTTTACATGGGACCTCTAATCTCG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * *
18887598 ATGCCAACGCCATGTCCCAGACATGGTCTAACATGGGACCTTTCATCTCAG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC-G
* *
18887649 TGCCAACGCTATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
18887698 TG
1 TG
18887700 TTTACATAGA
Statistics
Matches: 263, Mismatches: 32, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
49 43 0.16
50 218 0.83
51 2 0.01
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
Found at i:18887779 original size:44 final size:44
Alignment explanation
Indices: 18887723--18887809 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
18887713 ACCATGGTAC
*
18887723 TTTTCCGTCAATTCTT-TCTTAATTGCCATGTTATAAACATGGAA
1 TTTTCCATCAATTCTTCT-TTAATTGCCATGTTATAAACATGGAA
18887767 TTTTCCATCAATTCTTCTTTAATTGCCATGTTATAAACATGGA
1 TTTTCCATCAATTCTTCTTTAATTGCCATGTTATAAACATGGA
18887810 CCTTGAGATA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
44 40 0.98
45 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.10, T:0.44
Consensus pattern (44 bp):
TTTTCCATCAATTCTTCTTTAATTGCCATGTTATAAACATGGAA
Found at i:18890368 original size:18 final size:19
Alignment explanation
Indices: 18890345--18890383 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18890335 TACAAATGCA
*
18890345 AACATT-ACATAATTATTT
1 AACATTCACATAATGATTT
*
18890363 AACATTCACATCATGATTT
1 AACATTCACATAATGATTT
18890382 AA
1 AA
18890384 TCTTATCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (19 bp):
AACATTCACATAATGATTT
Found at i:18890938 original size:6 final size:6
Alignment explanation
Indices: 18890927--18890952 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18890917 CACTATCTCA
18890927 TATTCT TATTCT TATTCT TATTCT TA
1 TATTCT TATTCT TATTCT TATTCT TA
18890953 GCCCAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.00, T:0.65
Consensus pattern (6 bp):
TATTCT
Found at i:18891050 original size:22 final size:22
Alignment explanation
Indices: 18891025--18891079 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
18891015 TGCACTAATG
18891025 AACAGAGAGCAC-TGAAGTGCTA
1 AACAGAGAGCACAT-AAGTGCTA
* *
18891047 AACAGAAAGCACATATGTGCTA
1 AACAGAGAGCACATAAGTGCTA
18891069 AACAGAGAGCA
1 AACAGAGAGCA
18891080 TTGACATGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (22 bp):
AACAGAGAGCACATAAGTGCTA
Found at i:18891089 original size:22 final size:21
Alignment explanation
Indices: 18891025--18891090 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 21
18891015 TGCACTAATG
*
18891025 AACAGAGAGCACTGAAGTGCTA
1 AACAGAGAGCAATGAA-TGCTA
* *
18891047 AACAGAAAGCACAT-ATGTGCTA
1 AACAGAGAGCA-ATGA-ATGCTA
*
18891069 AACAGAGAGCATTGACATGCTA
1 AACAGAGAGCAATGA-ATGCTA
18891091 GTGATGCGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (21 bp):
AACAGAGAGCAATGAATGCTA
Found at i:18892269 original size:15 final size:15
Alignment explanation
Indices: 18892227--18892276 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
18892217 ATATTTTTAT
18892227 TTTTTTAATTTTAAAA
1 TTTTTTAATTTT-AAA
**
18892243 TACTTT--TTTTAAA
1 TTTTTTAATTTTAAA
18892256 TTTTTTAATTTTAAA
1 TTTTTTAATTTTAAA
18892271 TTTTTT
1 TTTTTT
18892277 TCAAAATACT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 7 0.25
14 4 0.14
15 13 0.46
16 4 0.14
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTTTAATTTTAAA
Found at i:18892289 original size:29 final size:29
Alignment explanation
Indices: 18892225--18892297 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 29
18892215 AAATATTTTT
*
18892225 ATTTTTTTAATTTTAAAATACTTTTTTTAA
1 ATTTTTTTAATTTTAAAATA-TTTTTTAAA
18892255 A-TTTTTTAATTTT-AAAT-TTTTTTCAAA
1 ATTTTTTTAATTTTAAAATATTTTTT-AAA
18892282 ATACTTTTTTAATTTT
1 AT--TTTTTTAATTTT
18892298 TTTTAAATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
26 6 0.16
27 3 0.08
28 4 0.11
29 12 0.32
30 13 0.34
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (29 bp):
ATTTTTTTAATTTTAAAATATTTTTTAAA
Found at i:18892307 original size:41 final size:41
Alignment explanation
Indices: 18892235--18892359 Score: 157
Period size: 45 Copynumber: 3.0 Consensus size: 41
18892225 ATTTTTTTAA
* *
18892235 TTTTAAAATACTTTTTTTAA-ATTTTTTAATTTT-AAATTT
1 TTTTAAAATACTTTTTTTAATTTTTTTTAATTTTAAAATAT
18892274 TTTTCAAAATAC-TTTTTTAATTTTTTTTAAATTTTAAAATAT
1 TTTT-AAAATACTTTTTTTAATTTTTTTT-AATTTTAAAATAT
18892316 TTTTAAAATACTTTTTTTTAATTTTTGTTTTAATTTTTAAAATA
1 TTTTAAAATAC-TTTTTTTAA-TTTT-TTTTAA-TTTTAAAATA
18892360 AATTTTTGGT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
39 12 0.16
40 13 0.17
41 13 0.17
42 9 0.12
43 8 0.11
44 6 0.08
45 14 0.19
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (41 bp):
TTTTAAAATACTTTTTTTAATTTTTTTTAATTTTAAAATAT
Found at i:18892659 original size:15 final size:14
Alignment explanation
Indices: 18892638--18892673 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
18892628 ATAATCCTTA
*
18892638 ATAATTATCTTAAT
1 ATAATTATCCTAAT
18892652 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
18892667 ATAATTA
1 ATAATTA
18892674 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:18893010 original size:25 final size:25
Alignment explanation
Indices: 18892949--18893011 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
18892939 ATCAGCTAGT
* * *
18892949 AATCAGAGAGCACTGACGTGGTAAT
1 AATCAGAGAGCGCTGACGTGCTAAG
*
18892974 AATCAGAGAGCGCTGATGTGCTAAG
1 AATCAGAGAGCGCTGACGTGCTAAG
18892999 AATCAGAGAGCGC
1 AATCAGAGAGCGC
18893012 GCTAAAGTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.17
Consensus pattern (25 bp):
AATCAGAGAGCGCTGACGTGCTAAG
Found at i:18894036 original size:23 final size:23
Alignment explanation
Indices: 18894006--18894052 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
18893996 AATAAGTATG
18894006 TACATATATTAATTACAAATGTA
1 TACATATATTAATTACAAATGTA
* *
18894029 TACATATATTTATTACACATGTA
1 TACATATATTAATTACAAATGTA
18894052 T
1 T
18894053 TTATAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (23 bp):
TACATATATTAATTACAAATGTA
Found at i:18900494 original size:15 final size:15
Alignment explanation
Indices: 18900471--18900507 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
18900461 CAAAACAAAG
*
18900471 AATCCATCAGGAATC
1 AATCTATCAGGAATC
18900486 AATCTATCAGGAATC
1 AATCTATCAGGAATC
18900501 AATCTAT
1 AATCTAT
18900508 GTATACGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.27
Consensus pattern (15 bp):
AATCTATCAGGAATC
Found at i:18907603 original size:11 final size:11
Alignment explanation
Indices: 18907587--18907611 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18907577 TGCCATTGAT
18907587 GACAATCCAAA
1 GACAATCCAAA
18907598 GACAATCCAAA
1 GACAATCCAAA
18907609 GAC
1 GAC
18907612 TATACCTGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.28, G:0.12, T:0.08
Consensus pattern (11 bp):
GACAATCCAAA
Found at i:18907846 original size:31 final size:31
Alignment explanation
Indices: 18907808--18907870 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
18907798 TTTCTCCATT
18907808 TCCTTTCAGACCCATTTCTGCTAGCCCCACA
1 TCCTTTCAGACCCATTTCTGCTAGCCCCACA
18907839 TCCTTTCAGACCCATTTCTGCTAGCCCCACA
1 TCCTTTCAGACCCATTTCTGCTAGCCCCACA
18907870 T
1 T
18907871 TCTATCTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.19, C:0.41, G:0.10, T:0.30
Consensus pattern (31 bp):
TCCTTTCAGACCCATTTCTGCTAGCCCCACA
Found at i:18919926 original size:13 final size:13
Alignment explanation
Indices: 18919895--18919931 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
18919885 TTATTATAAA
18919895 CAAAATAAACAACC
1 CAAAATAAA-AACC
*
18919909 CAAAATAAAAATC
1 CAAAATAAAAACC
18919922 CAAAATAAAA
1 CAAAATAAAA
18919932 CAAAAACGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.70, C:0.19, G:0.00, T:0.11
Consensus pattern (13 bp):
CAAAATAAAAACC
Found at i:18922995 original size:21 final size:21
Alignment explanation
Indices: 18922971--18923012 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
18922961 GAAGTTAAAA
18922971 TGTTTTAATTTCTCA-TTAATT
1 TGTTTTAATTTC-CATTTAATT
18922992 TGTTTTAATTTCCATTTAATT
1 TGTTTTAATTTCCATTTAATT
18923013 ACAAAATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.24, C:0.10, G:0.05, T:0.62
Consensus pattern (21 bp):
TGTTTTAATTTCCATTTAATT
Found at i:18928483 original size:6 final size:6
Alignment explanation
Indices: 18928466--18928503 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
18928456 TACCTTCTTC
*
18928466 TCCCCTT TCCCCT TCCCCT TCCCTT TCCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
18928504 GGGTTGCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (6 bp):
TCCCCT
Found at i:18928503 original size:18 final size:18
Alignment explanation
Indices: 18928468--18928503 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
18928458 CCTTCTTCTC
18928468 CCCTTTCCCCTTCCCCTT
1 CCCTTTCCCCTTCCCCTT
18928486 CCCTTTCCCCTTCCCCTT
1 CCCTTTCCCCTTCCCCTT
18928504 GGGTTGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (18 bp):
CCCTTTCCCCTTCCCCTT
Found at i:18930300 original size:39 final size:39
Alignment explanation
Indices: 18930251--18930331 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
18930241 TTCTTCATGG
*
18930251 TTATTTTTGCTTTCATGTTATCAACCATTTATTATGACC
1 TTATTCTTGCTTTCATGTTATCAACCATTTATTATGACC
18930290 TTATTCTTGCTTTCATGTTATCAACCATTTATTATGACC
1 TTATTCTTGCTTTCATGTTATCAACCATTTATTATGACC
18930329 TTA
1 TTA
18930332 CTTTGCTACG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.23, C:0.19, G:0.07, T:0.51
Consensus pattern (39 bp):
TTATTCTTGCTTTCATGTTATCAACCATTTATTATGACC
Found at i:18931589 original size:21 final size:21
Alignment explanation
Indices: 18931540--18931592 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
18931530 CGTTGTTTTT
**
18931540 AATCTCAATGCTACAGTACCC
1 AATCTCACCGCTACAGTACCC
18931561 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTACCC
18931582 AATCTCACCGC
1 AATCTCACCGC
18931593 CACCGCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTACCC
Found at i:18932458 original size:31 final size:29
Alignment explanation
Indices: 18932427--18932482 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
18932417 AAAATTTGAA
18932427 AAAGGTAAAC-TTTTAGTCACTTATATTTG
1 AAAGGT-AACGTTTTAGTCACTTATATTTG
* *
18932456 AAATGTTACGTTTTAGTCACTTATATT
1 AAAGGTAACGTTTTAGTCACTTATATT
18932483 AACGTATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (29 bp):
AAAGGTAACGTTTTAGTCACTTATATTTG
Found at i:18932713 original size:20 final size:21
Alignment explanation
Indices: 18932688--18932729 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18932678 TTTCATTATC
* *
18932688 TTCTA-CTTCTTCATCTGTTT
1 TTCTACCTTCTCCATCTCTTT
18932708 TTCTACCTTCTCCATCTCTTT
1 TTCTACCTTCTCCATCTCTTT
18932729 T
1 T
18932730 AATATAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.10, C:0.31, G:0.02, T:0.57
Consensus pattern (21 bp):
TTCTACCTTCTCCATCTCTTT
Found at i:18942671 original size:2 final size:2
Alignment explanation
Indices: 18942664--18942699 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
18942654 TGAGTGGGAA
18942664 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
18942700 CTTATTTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:18947677 original size:20 final size:20
Alignment explanation
Indices: 18947641--18947691 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
18947631 TCATTCTACT
*
18947641 AAAAATTA--TAAATTATAA
1 AAAAATTATTTAAAATATAA
*
18947659 AAAAATTATTTAAAATATAT
1 AAAAATTATTTAAAATATAA
*
18947679 GAAAATT-TTTAAA
1 AAAAATTATTTAAA
18947692 GTCGTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 8 0.29
19 6 0.21
20 14 0.50
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAAATTATTTAAAATATAA
Found at i:18948611 original size:2 final size:2
Alignment explanation
Indices: 18948604--18948635 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18948594 ACAGTCATTA
18948604 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18948636 TTAACCGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18953586 original size:6 final size:7
Alignment explanation
Indices: 18953567--18953594 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
18953557 AGTTCAGATC
18953567 GGTTTTT
1 GGTTTTT
18953574 GGTTTTT
1 GGTTTTT
18953581 GGTTTTT
1 GGTTTTT
18953588 GGTTTTT
1 GGTTTTT
18953595 TTACTTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.29, T:0.71
Consensus pattern (7 bp):
GGTTTTT
Found at i:18953738 original size:16 final size:15
Alignment explanation
Indices: 18953719--18953755 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
18953709 ATTATAAAAG
18953719 AAAAAT-AATAATATT
1 AAAAATAAATAATA-T
18953734 AAAAATAAATAATAT
1 AAAAATAAATAATAT
18953749 AAAAATA
1 AAAAATA
18953756 TGCAATCTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAATAAATAATAT
Found at i:18953817 original size:15 final size:16
Alignment explanation
Indices: 18953788--18953822 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
18953778 TTATAAAAAT
*
18953788 ATATAAAATTTTAATA
1 ATATAAAATTATAATA
18953804 ATATAAAA-TATAATA
1 ATATAAAATTATAATA
18953819 ATAT
1 ATAT
18953823 GTATTAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAAAATTATAATA
Found at i:18967054 original size:20 final size:20
Alignment explanation
Indices: 18967029--18967077 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
18967019 TGAGTTATTT
18967029 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
18967049 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
18967069 AAG-AAGCAA
1 AAGTAAGCAA
18967078 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:18969703 original size:33 final size:33
Alignment explanation
Indices: 18969661--18969958 Score: 149
Period size: 33 Copynumber: 8.4 Consensus size: 33
18969651 GTGGATTCAA
*
18969661 CACTTAGCAACCACCAGTGATTCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
*
18969694 CACTTAGCAACCCCTTTCACATTCAATGATACGGTGGAATCAG
1 CACTTAGCAA---C---CAC---CAATGATTCGG-GGAATCAG
* * * *
18969737 CAATTAGCAATCACCAATGAATCGGGGAATAAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* * * *
18969770 TACTTAGCAACCCCTTTCACATTTAGGATACGGTGGGATCAG
1 CACTTAGCAACCAC---CA-A--T--GATTCGG-GGAATCAG
*
18969812 CACTTAGCAACCACCAATGAATCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* * *
18969845 CACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAG
1 CACTTAGCAA-CCAC--CA-A--T--GATTCGG-GGAATCAG
* *
18969887 CACTTAGCAACCACCAATGAATCAGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
*
18969920 CACTTAGCAACC-CC-----TTGGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
18969947 CACTTAGCAACC
1 CACTTAGCAACC
18969959 CCCTTTATAT
Statistics
Matches: 205, Mismatches: 32, Indels: 62
0.69 0.11 0.21
Matches are distributed among these distances:
27 22 0.11
32 2 0.01
33 64 0.31
34 20 0.10
36 7 0.03
37 5 0.02
38 2 0.01
39 9 0.04
41 12 0.06
42 45 0.22
43 17 0.08
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (33 bp):
CACTTAGCAACCACCAATGATTCGGGGAATCAG
Found at i:18969818 original size:42 final size:41
Alignment explanation
Indices: 18969686--18969935 Score: 172
Period size: 33 Copynumber: 6.6 Consensus size: 41
18969676 AGTGATTCGG
*
18969686 GGAATCAGCACTTAGCAACCCCTTTCACATTCA-ATGATACGGT
1 GGAATCAGCACTTAGCAACCCC-TTCACATTTAGA--ATACGGT
* * *
18969729 GGAATCAGCAATTAGCAATCAC--CA-A--T-GAAT-CGG-
1 GGAATCAGCACTTAGCAACCCCTTCACATTTAGAATACGGT
* * *
18969762 GGAATAAGTACTTAGCAACCCCTTTCACATTTAGGATACGGT
1 GGAATCAGCACTTAGCAACCCC-TTCACATTTAGAATACGGT
* *
18969804 GGGATCAGCACTTAGCAACCAC--CA-A--T-GAAT-CGG-
1 GGAATCAGCACTTAGCAACCCCTTCACATTTAGAATACGGT
*
18969837 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAA-CCCCTTCACATTTAGAATACGGT
* *
18969879 GGAATCAGCACTTAGCAACCAC--CA-A--T-GAAT-CAG-
1 GGAATCAGCACTTAGCAACCCCTTCACATTTAGAATACGGT
18969912 GGAATCAGCACTTAGCAACCCCTT
1 GGAATCAGCACTTAGCAACCCCTT
18969936 GGGGGAATCA
Statistics
Matches: 164, Mismatches: 22, Indels: 50
0.69 0.09 0.21
Matches are distributed among these distances:
33 55 0.34
34 11 0.07
35 8 0.05
36 6 0.04
37 3 0.02
38 2 0.01
39 7 0.04
40 8 0.05
41 9 0.05
42 36 0.22
43 19 0.12
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCCCTTCACATTTAGAATACGGT
Found at i:18969829 original size:75 final size:75
Alignment explanation
Indices: 18969649--18969935 Score: 439
Period size: 75 Copynumber: 3.8 Consensus size: 75
18969639 TATCCGTTAT
* * * *
18969649 CGGTGGATTCAACACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
18969714 ATTCAATGATA
66 ATTTAA-GATA
* * * *
18969725 CGGTGGAATCAGCAATTAGCAATCACCAATGAATCGGGGAATAAGTACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
18969790 ATTTAGGATA
66 ATTTAAGATA
* *
18969800 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
18969865 ATTTAAAATA
66 ATTTAAGATA
*
18969875 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
18969936 GGGGGAATCA
Statistics
Matches: 190, Mismatches: 21, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
75 129 0.68
76 61 0.32
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTTAAGATA
Found at i:18977398 original size:33 final size:33
Alignment explanation
Indices: 18977352--18977554 Score: 156
Period size: 33 Copynumber: 5.6 Consensus size: 33
18977342 ATTATACGGT
18977352 GGAATCAGCACTTAGCAACCACCAATGAATCGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* * *
18977385 GGAATCAGTACTTAGAAACCCCTTTCACATTTAAGATAT-GG
1 GGAATCAGCACTTAGCAACCAC---CA-A--T--GA-ATCGG
*
18977426 TGGGATCAGCACTTAGCAACCACCAATGAATCGG
1 -GGAATCAGCACTTAGCAACCACCAATGAATCGG
* * *
18977460 GGAATCAGCACTTAACAACCCCCTTCACATTTAAAATACGG
1 GGAATCAGCACTTAGCAA-CCAC--CA-A--T-GAAT-CGG
*
18977501 TGGAATCAGCACTTAGCAACCACCAACGAATCGG
1 -GGAATCAGCACTTAGCAACCACCAATGAATCGG
18977535 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
18977555 CCTTAGGGGA
Statistics
Matches: 135, Mismatches: 15, Indels: 40
0.71 0.08 0.21
Matches are distributed among these distances:
33 57 0.42
34 10 0.07
35 3 0.02
36 5 0.04
37 2 0.01
38 2 0.01
39 6 0.04
40 3 0.02
41 10 0.07
42 37 0.27
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.20
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAATCGG
Found at i:18977398 original size:76 final size:75
Alignment explanation
Indices: 18977272--18977558 Score: 430
Period size: 75 Copynumber: 3.8 Consensus size: 75
18977262 TATCCGTTAT
* * * * *
18977272 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGAGGAATCAACACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
18977337 ATTCAATTATA
66 ATTTAA-TATA
* *
18977348 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGTACTTAGAAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
18977413 ATTTAAGATA
66 ATTTAATATA
* * * *
18977423 TGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAACAACCCCCTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
18977488 ATTTAAAATA
66 ATTTAATATA
*
18977498 CGGTGGAATCAGCACTTAGCAACCACCAACGAATCGGGGAATCAGCACTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
18977559 AGGGGAATCA
Statistics
Matches: 190, Mismatches: 21, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
75 127 0.67
76 63 0.33
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTTAATATA
Found at i:18983077 original size:42 final size:43
Alignment explanation
Indices: 18982976--18983079 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
18982966 TCTCTAGATT
* * *
18982976 GTGTGCAATTCGAAATAGGGCCACACAGTCGTGTTGCCATACC
1 GTGTGCAATTCAAAATAGGGCCACACAGCCGTGTTGCCAGACC
* * * * * *
18983019 ATGTGCAATTCCAAATAGGGTCATACGGCCGTGTTG-TAGACC
1 GTGTGCAATTCAAAATAGGGCCACACAGCCGTGTTGCCAGACC
18983061 GTGTGCAATTCAAAATAGG
1 GTGTGCAATTCAAAATAGG
18983080 ATCACATGAT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 21 0.41
43 30 0.59
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (43 bp):
GTGTGCAATTCAAAATAGGGCCACACAGCCGTGTTGCCAGACC
Found at i:18983094 original size:42 final size:42
Alignment explanation
Indices: 18982976--18983094 Score: 105
Period size: 42 Copynumber: 2.8 Consensus size: 42
18982966 TCTCTAGATT
* * * *
18982976 GTGTGCAATTCGAAATAGGGCCACACAGTCGTGTTGCCATACC
1 GTGTGCAATTCAAAATAGGGTCACAGA-TCGTGTTGCCAGACC
* * * ** *
18983019 ATGTGCAATTCCAAATAGGGTCATACGGCCGTGTTG-TAGACC
1 GTGTGCAATTCAAAATAGGGTCACA-GATCGTGTTGCCAGACC
*
18983061 GTGTGCAATTCAAAATAGGATCACATGATCGTGT
1 GTGTGCAATTCAAAATAGGGTCACA-GATCGTGT
18983095 CACAAATTGT
Statistics
Matches: 59, Mismatches: 16, Indels: 3
0.76 0.21 0.04
Matches are distributed among these distances:
42 31 0.53
43 28 0.47
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (42 bp):
GTGTGCAATTCAAAATAGGGTCACAGATCGTGTTGCCAGACC
Found at i:18985430 original size:68 final size:68
Alignment explanation
Indices: 18985321--18985504 Score: 232
Period size: 68 Copynumber: 2.7 Consensus size: 68
18985311 GAAAGTCTGC
*
18985321 CAGGACATTAAACATG-GAGATTACAAGTGTAAGACCATAGCTCAACTATGGCAACCAATAGAGC
1 CAGGACATTAAACATGAG-GATTACAAGTGTAAGACCATAGCTCAACTATGGAAACCAATAGAG-
18985385 CCT-T
64 CCTGT
* * * * *
18985389 CAGGACATTAGACATGAGGATTACAGGTGTAAGATCATAGCTCGACTATGGAAACCAATAGAGTC
1 CAGGACATTAAACATGAGGATTACAAGTGTAAGACCATAGCTCAACTATGGAAACCAATAGAGCC
18985454 TGT
66 TGT
* * *
18985457 CAGGACATTAAACATGAGGCATGATAA--GTAAGACCATAGCTCGACTAT
1 CAGGACATTAAACATGAGG-ATTACAAGTGTAAGACCATAGCTCAACTAT
18985505 AGCAACATAT
Statistics
Matches: 102, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
67 22 0.22
68 75 0.74
69 5 0.05
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (68 bp):
CAGGACATTAAACATGAGGATTACAAGTGTAAGACCATAGCTCAACTATGGAAACCAATAGAGCC
TGT
Found at i:18985519 original size:67 final size:66
Alignment explanation
Indices: 18985314--18985520 Score: 231
Period size: 68 Copynumber: 3.1 Consensus size: 66
18985304 AACATGTGAA
* *
18985314 AGTCTGCCAGGACATTAAACATG-GAGATTACAAGTGTAAGACCATAGCTCAACTATGGCAACCA
1 AGTCTGTCAGGACATTAAACATGAG-GATTACAA--GTAAGACCATAGCTCGACTATGGCAACCA
18985378 ATAG
63 ATAG
* * * * *
18985382 AGCCCT-TCAGGACATTAGACATGAGGATTACAGGTGTAAGATCATAGCTCGACTATGGAAACCA
1 AG-TCTGTCAGGACATTAAACATGAGGATTACA--AGTAAGACCATAGCTCGACTATGGCAACCA
18985446 ATAG
63 ATAG
* * *
18985450 AGTCTGTCAGGACATTAAACATGAGGCATGATAAGTAAGACCATAGCTCGACTATAGCAA-CATA
1 AGTCTGTCAGGACATTAAACATGAGG-ATTACAAGTAAGACCATAGCTCGACTATGGCAACCA-A
18985514 TAG
64 TAG
18985517 AGTC
1 AGTC
18985521 AATTGGGACA
Statistics
Matches: 117, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
66 2 0.02
67 33 0.28
68 75 0.64
69 7 0.06
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (66 bp):
AGTCTGTCAGGACATTAAACATGAGGATTACAAGTAAGACCATAGCTCGACTATGGCAACCAATA
G
Found at i:18995632 original size:89 final size:89
Alignment explanation
Indices: 18995516--18995691 Score: 266
Period size: 89 Copynumber: 2.0 Consensus size: 89
18995506 TAATCCGCTC
* *
18995516 CACTGCAACTTCAAGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
1 CACTGCAACTTCAAGGAGATAAGATTATTGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGATA
*
18995581 AGATTCGCCA-TCTTCAGTCTGCCT
66 AGATTCG-CAGTCTTCAATCTGCCT
* *
18995605 CACTGCAACCTT-AGGGAGATAAGATTATTGGCTTTAATCTGCTCCACTGTAACCTCAGGGAGAT
1 CACTGCAA-CTTCAAGGAGATAAGATTATTGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGAT
*
18995669 AAGATTTGCAGTCTTCAATCTGC
65 AAGATTCGCAGTCTTCAATCTGC
18995692 TCCACTACTG
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
88 2 0.03
89 74 0.94
90 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (89 bp):
CACTGCAACTTCAAGGAGATAAGATTATTGGCTTTAATCTGCTCCACTGCAACCTCAGGGAGATA
AGATTCGCAGTCTTCAATCTGCCT
Found at i:18995667 original size:133 final size:128
Alignment explanation
Indices: 18995425--18995674 Score: 297
Period size: 133 Copynumber: 1.9 Consensus size: 128
18995415 ACTTTCTTGG
* * * *
18995425 TCTGCTCCATTGCAACTTCAGGGAGATAAGACCTGATATGATCTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCTCATATCATCTGCTCACTGCAACTTCAGAGAG
* * *
18995490 ATAAGATCAGTGGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTTTAA
66 ATAAGATCAGTGGCTTTAATCCGCTCCACTGCAACCTCAAGGAGATAAGATTATTGGCTTTAA
*
18995553 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGC-CATCTTCAGTCTGCCTCACTGCAACCTT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA--C-CTCAT-ATCA-TCTG-CTCACTGCAA-CTT
* * * * * *
18995617 -AGGGAGATAAGATTATTGGCTTTAATCTGCTCCACTGTAACCTCAGGGAGATAAGATT
59 CAGAGAGATAAGATCAGTGGCTTTAATCCGCTCCACTGCAACCTCAAGGAGATAAGATT
18995675 TGCAGTCTTC
Statistics
Matches: 101, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
128 30 0.30
130 3 0.03
131 3 0.03
132 4 0.04
133 58 0.57
134 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (128 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACCTCATATCATCTGCTCACTGCAACTTCAGAGAG
ATAAGATCAGTGGCTTTAATCCGCTCCACTGCAACCTCAAGGAGATAAGATTATTGGCTTTAA
Found at i:18995674 original size:44 final size:44
Alignment explanation
Indices: 18995425--18995674 Score: 228
Period size: 44 Copynumber: 5.8 Consensus size: 44
18995415 ACTTTCTTGG
* ** * * *
18995425 TCTGCTCCATTGCAACTTCAGGGAGATAAGA--CCT-GATATGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAA
* * * * *
18995466 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCAGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAA
* * *
18995509 TCCGCTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAA
* * *
18995553 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TCGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGGC-T-TT-AA
18995598 TCTGC-CTCACTGCAACCTT-AGGGAGATAAGATTATTGGCTTTAA
1 TCTGCTC-CACTGCAA-CTTCAGGGAGATAAGATTATTGGCTTTAA
* *
18995642 TCTGCTCCACTGTAACCTCAGGGAGATAAGATT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT
18995675 TGCAGTCTTC
Statistics
Matches: 169, Mismatches: 27, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
40 21 0.12
41 6 0.04
42 4 0.02
43 13 0.08
44 88 0.52
45 29 0.17
46 5 0.03
47 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAA
Found at i:18995885 original size:44 final size:44
Alignment explanation
Indices: 18995820--18996152 Score: 241
Period size: 44 Copynumber: 7.6 Consensus size: 44
18995810 TGTCTTCGAT
* *
18995820 CTACTCCACTACTGTTTAGGGAGATAAGATCTGTAATTTTCAAC
1 CTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAAC
** ** * *
18995864 CTACTCCACTGTTGCTCAGGGAGATAA-AGT-TGGGGA-TTTCGAT
1 CTACTCCACTACTGCTCAGGGAGATAAGA-TCT-GTAATTTTCAAC
* * *
18995907 CTGCTCCACTACTGC-CTAGGGAGATAACATTTGTAATTTTCAAC
1 CTACTCCACTACTGCTC-AGGGAGATAAGATCTGTAATTTTCAAC
* * ** * * *
18995951 CTACTCCACTACTGCTTAGGGAGATAA-AGCTAGGGA-CTTCGAT
1 CTACTCCACTACTGCTCAGGGAGATAAGATCT-GTAATTTTCAAC
* *
18995994 CTACTCCACTACTGCTTACGGAGATAAGATCTGTAATTTTCAAC
1 CTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAAC
* * * * ** * * *
18996038 CTACTGCACTGCTGCTCAAGGAGATAAG-GCTGGGGA-CTTCGAT
1 CTACTCCACTACTGCTCAGGGAGATAAGATCT-GTAATTTTCAAC
* * * *
18996081 ATGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
1 CTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAAC
* * *
18996125 CTATTCTACTGCTGCTCAGGGAGATAAG
1 CTACTCCACTACTGCTCAGGGAGATAAG
18996153 GCTGGGGACT
Statistics
Matches: 215, Mismatches: 61, Indels: 26
0.71 0.20 0.09
Matches are distributed among these distances:
42 1 0.00
43 95 0.44
44 119 0.55
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
CTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAAC
Found at i:18995928 original size:43 final size:43
Alignment explanation
Indices: 18995814--18996194 Score: 209
Period size: 43 Copynumber: 8.8 Consensus size: 43
18995804 GGCTAGTGTC
* **
18995814 TTCGATCTACTCCACTACTGTTTAGGGAGAT-AAGATCT-GTAATT
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAAG-T-TGGGGA-T
* * ** *
18995858 TTCAACCTACTCCACTGTTGCTCAGGGAGATAAAGTTGGGGAT
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAAGTTGGGGAT
* * * **
18995901 TTCGATCTGCTCCACTACTGCCTAGGGAGATAACA-TTTGTAATT
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAA-AGTTGGGGA-T
* * * * *
18995945 TTCAACCTACTCCACTACTGCTTAGGGAGATAAAGCTAGGGAC
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAAGTTGGGGAT
* **
18995988 TTCGATCTACTCCACTACTGCTTACGGAGAT-AAGATCT-GTAATT
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAAG-T-TGGGGA-T
* * * * * * * * *
18996032 TTCAACCTACTGCACTGCTGCTCAAGGAGATAAGGCTGGGGAC
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAAGTTGGGGAT
* * * **
18996075 TTCGATATGCTCCATTACTGCTTAGGGAGAT-AAGATCT-GTAATT
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAAG-T-TGGGGA-T
* * * * * * * * *
18996119 TTCAACCTATTCTACTGCTGCTCAGGGAGATAAGGCTGGGGAC
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAAGTTGGGGAT
*
18996162 TTCGATCTGCTCCACTACTGCTTAGGGAGATAA
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAA
18996195 GATCTTTGAT
Statistics
Matches: 242, Mismatches: 80, Indels: 31
0.69 0.23 0.09
Matches are distributed among these distances:
42 5 0.02
43 115 0.48
44 115 0.48
45 7 0.03
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (43 bp):
TTCGATCTACTCCACTACTGCTTAGGGAGATAAAGTTGGGGAT
Found at i:18996223 original size:87 final size:87
Alignment explanation
Indices: 18995813--18996199 Score: 585
Period size: 87 Copynumber: 4.4 Consensus size: 87
18995803 AGGCTAGTGT
* * *
18995813 CTTCGATCTACTCCACTACTGTTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGTTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
*
18995878 CTCAGGGAGATAAAGTTGGGGA
66 CTCAGGGAGATAAAGCTGGGGA
* * * * *
18995900 TTTCGATCTGCTCCACTACTGCCTAGGGAGATAACATTTGTAATTTTCAACCTACTCCACTACTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
* *
18995965 CTTAGGGAGATAAAGCTAGGGA
66 CTCAGGGAGATAAAGCTGGGGA
* * *
18995987 CTTCGATCTACTCCACTACTGCTTACGGAGATAAGATCTGTAATTTTCAACCTACTGCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
* *
18996052 CTCAAGGAGATAAGGCTGGGGA
66 CTCAGGGAGATAAAGCTGGGGA
* * * *
18996074 CTTCGATATGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCTACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
*
18996139 CTCAGGGAGATAAGGCTGGGGA
66 CTCAGGGAGATAAAGCTGGGGA
18996161 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
18996200 TTGATTTTTA
Statistics
Matches: 267, Mismatches: 33, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 267 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (87 bp):
CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
CTCAGGGAGATAAAGCTGGGGA
Found at i:19007485 original size:11 final size:11
Alignment explanation
Indices: 19007469--19007499 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
19007459 TCCAGTGGAG
19007469 TCGCCAAGCTA
1 TCGCCAAGCTA
19007480 TCGCCAAGCTA
1 TCGCCAAGCTA
19007491 TCGCCAAGC
1 TCGCCAAGC
19007500 ACCCTCGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.26, C:0.39, G:0.19, T:0.16
Consensus pattern (11 bp):
TCGCCAAGCTA
Found at i:19008413 original size:24 final size:23
Alignment explanation
Indices: 19008386--19008451 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
19008376 AAATTATAAA
* * *
19008386 ATTTATATAACAAAATTATAATGT
1 ATTTATATAAAAAAAATA-AATAT
19008410 ATTTAT-TAAAAAAAATAAATAT
1 ATTTATATAAAAAAAATAAATAT
* * *
19008432 ATGTATATATATAAAATAAA
1 ATTTATATAAAAAAAATAAA
19008452 AAAATATGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
22 9 0.26
23 20 0.57
24 6 0.17
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (23 bp):
ATTTATATAAAAAAAATAAATAT
Found at i:19012582 original size:54 final size:54
Alignment explanation
Indices: 19012465--19012573 Score: 143
Period size: 54 Copynumber: 2.0 Consensus size: 54
19012455 ATTTTTTTTC
*
19012465 TTCAAAA-TTTAAATTTTGTTGAGGAATCTTAAAATTAATAATTTTAAATTTGA
1 TTCAAAATTTTAAATTTTGTTGAGGAATCTTAAAATTAAGAATTTTAAATTTGA
* * *
19012518 TTCAAAATTTTAAA-TTTGATTGAGGCATCTTAAAATT-CGAATTCTTAATTTTGA
1 TTCAAAATTTTAAATTTTG-TTGAGGAATCTTAAAATTAAGAATT-TTAAATTTGA
19012572 TT
1 TT
19012574 TTATATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
53 15 0.31
54 34 0.69
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (54 bp):
TTCAAAATTTTAAATTTTGTTGAGGAATCTTAAAATTAAGAATTTTAAATTTGA
Found at i:19015936 original size:68 final size:68
Alignment explanation
Indices: 19015825--19015973 Score: 183
Period size: 68 Copynumber: 2.2 Consensus size: 68
19015815 TCCGTTAGAG
* * * * * *
19015825 CATTAAAAATTGGGATTACAGGTGTAAGACTATAGCTCAACTATGACATCTAATAGAGTCTG-CT
1 CATTAAAAATGGGGATTACAAGCGTAAAACTATAGCTCAACTATGACAACTAATAGAGTCCGTC-
19015889 AGGA
65 AGGA
* * * * *
19015893 CATTAAACATGGGGATTACAAGCGTAAAATTGTAGCTCCACTATGGCAACTAATAGAGTCCGTCA
1 CATTAAAAATGGGGATTACAAGCGTAAAACTATAGCTCAACTATGACAACTAATAGAGTCCGTCA
19015958 GGA
66 GGA
19015961 CATTAAAAATGGG
1 CATTAAAAATGGG
19015974 TTATAATGAG
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
68 67 0.99
69 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (68 bp):
CATTAAAAATGGGGATTACAAGCGTAAAACTATAGCTCAACTATGACAACTAATAGAGTCCGTCA
GGA
Found at i:19016092 original size:27 final size:27
Alignment explanation
Indices: 19016041--19016099 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
19016031 TAAATGTGCG
**
19016041 TAGTCCGCAAGGACAATAATCATGGGA
1 TAGTCCGCAAGGACAATAAAAATGGGA
* *
19016068 TAGTCCGCCAGGACAATAAAAATGGGG
1 TAGTCCGCAAGGACAATAAAAATGGGA
19016095 TAGTC
1 TAGTC
19016100 ATGATAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.19
Consensus pattern (27 bp):
TAGTCCGCAAGGACAATAAAAATGGGA
Found at i:19016948 original size:67 final size:67
Alignment explanation
Indices: 19016876--19017044 Score: 180
Period size: 67 Copynumber: 2.5 Consensus size: 67
19016866 CCGTTGGGAT
* * * * **
19016876 AGTAAACACGAGGTATGTTGTGTAAGATCATGGCTCGACTGTGGTGACATAAACAGTCCGTCAG-
1 AGTAAACACGAGGTATGTTGTGTAAGACCATAGCTCGACTATAGCAACATAAACAGTCCG-CAGA
*
19016940 GAC
65 AAC
* * * * *
19016943 AGTAAACA-TAGGGTATGTTGTCTAAGACCATAGCTCGACTATAGCAACATAGAGAGTCCGCCGA
1 AGTAAACACGA-GGTATGTTGTGTAAGACCATAGCTCGACTATAGCAACATAAACAGTCCGCAGA
19017007 AAC
65 AAC
* *
19017010 AGTAAACACGGGGTATGATGTGTAAGACCATAGCT
1 AGTAAACACGAGGTATGTTGTGTAAGACCATAGCT
19017045 TAGTTATGGA
Statistics
Matches: 83, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
66 3 0.04
67 80 0.96
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.22
Consensus pattern (67 bp):
AGTAAACACGAGGTATGTTGTGTAAGACCATAGCTCGACTATAGCAACATAAACAGTCCGCAGAA
AC
Found at i:19018976 original size:71 final size:70
Alignment explanation
Indices: 19018822--19018982 Score: 207
Period size: 71 Copynumber: 2.3 Consensus size: 70
19018812 TTATCAACTT
* *
19018822 TTAGAACCGAATGTATATTCACTATAAACATGAATAGCCGAATGCTTATATACATATATGCTTAA
1 TTAGAACCAAATGTATATACACTATAAACATGAATAGCCGAATGCTTATATACATATA-GCTTAA
*
19018887 CAGATA
65 CAAATA
** * * *
19018893 TTAGCTCAAAATGTATATACACTTTGAACATGAATAGCCGAATGCATATATATACATATA-CTTA
1 TTAGAACCAAATGTATATACACTATAAACATGAATAGCCGAATGC-T-TATATACATATAGCTTA
19018957 ACAAATA
64 ACAAATA
*
19018964 TTATAACCAAATGTATATA
1 TTAGAACCAAATGTATATA
19018983 TGTATTTATC
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
71 63 0.83
72 1 0.01
73 12 0.16
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.32
Consensus pattern (70 bp):
TTAGAACCAAATGTATATACACTATAAACATGAATAGCCGAATGCTTATATACATATAGCTTAAC
AAATA
Found at i:19019037 original size:35 final size:35
Alignment explanation
Indices: 19018965--19019044 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
19018955 TAACAAATAT
* * * *
19018965 TATAACCAAATGTATATATGTATTTATCACCTGCA
1 TATAACCAAATGCATATATGTACTTAACACCTACA
* **
19019000 TATATCCAAATGCATATATGTACTTAACATGTACA
1 TATAACCAAATGCATATATGTACTTAACACCTACA
*
19019035 TATAATCAAA
1 TATAACCAAA
19019045 CCTATACAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.35
Consensus pattern (35 bp):
TATAACCAAATGCATATATGTACTTAACACCTACA
Found at i:19019490 original size:41 final size:41
Alignment explanation
Indices: 19019445--19019632 Score: 297
Period size: 41 Copynumber: 4.6 Consensus size: 41
19019435 ACCAGCAATT
* *
19019445 AGCCTGTTAGACGTAAAGTCTGAAATATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
* *
19019486 AGCCTGCTAGACATAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
* *
19019527 AGCCTGCTAGACGTAAAGT-TCGAAATATTTCACCGGTATCA
1 AGCCTGCTAGACGTAAAGTCT-GAAACATTTCACCGGCATCA
*
19019568 AGCTTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
19019609 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
19019633 TCATCTTACT
Statistics
Matches: 133, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.01
41 131 0.98
42 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:19019694 original size:38 final size:38
Alignment explanation
Indices: 19019643--19019722 Score: 160
Period size: 38 Copynumber: 2.1 Consensus size: 38
19019633 TCATCTTACT
19019643 TTCAAACTATATATGTATATAAAATCCTTCCATAAAGA
1 TTCAAACTATATATGTATATAAAATCCTTCCATAAAGA
19019681 TTCAAACTATATATGTATATAAAATCCTTCCATAAAGA
1 TTCAAACTATATATGTATATAAAATCCTTCCATAAAGA
19019719 TTCA
1 TTCA
19019723 GCTCAAAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (38 bp):
TTCAAACTATATATGTATATAAAATCCTTCCATAAAGA
Found at i:19020175 original size:2 final size:2
Alignment explanation
Indices: 19020170--19020195 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19020160 ATACACACAC
19020170 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
19020196 TCGGACATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19028803 original size:20 final size:20
Alignment explanation
Indices: 19028770--19028815 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
19028760 TTGTTAAGTT
*
19028770 AAAAGAAGATAAAGTAAAGG
1 AAAAGAAGAGAAAGTAAAGG
* *
19028790 AAAAGCAGAGAAAGTAAATG
1 AAAAGAAGAGAAAGTAAAGG
19028810 AAAAGA
1 AAAAGA
19028816 GAAGTGAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.65, C:0.02, G:0.24, T:0.09
Consensus pattern (20 bp):
AAAAGAAGAGAAAGTAAAGG
Found at i:19032075 original size:40 final size:40
Alignment explanation
Indices: 19032025--19032302 Score: 152
Period size: 40 Copynumber: 7.2 Consensus size: 40
19032015 ACGCCCAGTG
*
19032025 CTAGTTGGATAAACCGACGATATCAAATGTGTGCCCAGCA
1 CTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCA
* * * * * *
19032065 CTATTCGGATAAACTGAC-A-AT-GAGT-TGCGCCCAGCG
1 CTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCA
* * *
19032101 TTAGTCAGG-TAAACTGACAATATCAAATGTGTGCCCAGCA
1 CTAGTC-GGATAAACCGACGATATCAAATGTGTGCCCAGCA
* ** * * * * *
19032141 CTAGTTGGATGTACCAAC-A-AT-GAGT-TGTGCCCAACG
1 CTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCA
* * *
19032177 CTAGTCGGGTAAATCGATGATATCAAATGTGTGCCCAGCA
1 CTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCA
* ** * * * * *
19032217 CTAGTTGGATGTACCGA-TA-AT-GAGT-TGCGCCCAGCG
1 CTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCA
* *
19032253 CTAGTCGTG-TAAACTGACGATATCAAATGTGTGCCCAACA
1 CTAGTCG-GATAAACCGACGATATCAAATGTGTGCCCAGCA
*
19032293 CTAGTTGGAT
1 CTAGTCGGAT
19032303 GTACTAACAA
Statistics
Matches: 167, Mismatches: 55, Indels: 32
0.66 0.22 0.13
Matches are distributed among these distances:
36 62 0.37
37 12 0.07
38 12 0.07
39 12 0.07
40 69 0.41
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (40 bp):
CTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCA
Found at i:19032258 original size:152 final size:152
Alignment explanation
Indices: 19032024--19032346 Score: 452
Period size: 152 Copynumber: 2.1 Consensus size: 152
19032014 TACGCCCAGT
* *
19032024 GCTAGTTGGATAAACCGACGATATCAAATGTGTGCCCAGCACTATTCGGATAAACTGACAATGAG
1 GCTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCACTATTCGGATAAACCGACAATGAG
* *
19032089 TTGCGCCCAGCGTTAGTCAG-GTAAACTGACAATATCAAATGTGTGCCCAGCACTAGTTGGATGT
66 TTGCGCCCAGCGCTAGTC-GTGTAAACTGACAATATCAAATGTGTGCCCAACACTAGTTGGATGT
19032153 ACCAACAATGAGTTGTGCCCAAC
130 ACCAACAATGAGTTGTGCCCAAC
* * * ** *
19032176 GCTAGTCGGGTAAATCGATGATATCAAATGTGTGCCCAGCACTAGTT-GGATGTACCGATAATGA
1 GCTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCACTA-TTCGGATAAACCGACAATGA
*
19032240 GTTGCGCCCAGCGCTAGTCGTGTAAACTGACGATATCAAATGTGTGCCCAACACTAGTTGGATGT
65 GTTGCGCCCAGCGCTAGTCGTGTAAACTGACAATATCAAATGTGTGCCCAACACTAGTTGGATGT
* ** *
19032305 ACTAACAATGAGTTGCACCCAGC
130 ACCAACAATGAGTTGTGCCCAAC
* **
19032328 ACTAGTCAAATAAACCGAC
1 GCTAGTCGGATAAACCGAC
19032347 AAATACATAC
Statistics
Matches: 148, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
151 1 0.01
152 145 0.98
153 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (152 bp):
GCTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCACTATTCGGATAAACCGACAATGAG
TTGCGCCCAGCGCTAGTCGTGTAAACTGACAATATCAAATGTGTGCCCAACACTAGTTGGATGTA
CCAACAATGAGTTGTGCCCAAC
Found at i:19032342 original size:76 final size:76
Alignment explanation
Indices: 19032016--19032335 Score: 405
Period size: 76 Copynumber: 4.2 Consensus size: 76
19032006 TAATGTTTTA
* * * **
19032016 CGCCCAGTGCTAGT-TGGATAAACCGACGATATCAAATGTGTGCCCAGCACTA-TTCGGATAAAC
1 CGCCCAGCGCTAGTCAGG-TAAACTGACGATATCAAATGTGTGCCCAGCACTAGTT-GGATGTAC
**
19032079 TGACAATGAGTTG
64 CAACAATGAGTTG
* *
19032092 CGCCCAGCGTTAGTCAGGTAAACTGACAATATCAAATGTGTGCCCAGCACTAGTTGGATGTACCA
1 CGCCCAGCGCTAGTCAGGTAAACTGACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTACCA
19032157 ACAATGAGTTG
66 ACAATGAGTTG
* * * *
19032168 TGCCCAACGCTAGTCGGGTAAA-TCGATGATATCAAATGTGTGCCCAGCACTAGTTGGATGTACC
1 CGCCCAGCGCTAGTCAGGTAAACT-GACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTACC
* *
19032232 GATAATGAGTTG
65 AACAATGAGTTG
* *
19032244 CGCCCAGCGCTAGTC-GTGTAAACTGACGATATCAAATGTGTGCCCAACACTAGTTGGATGTACT
1 CGCCCAGCGCTAGTCAG-GTAAACTGACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTACC
19032308 AACAATGAGTTG
65 AACAATGAGTTG
* *
19032320 CACCCAGCACTAGTCA
1 CGCCCAGCGCTAGTCA
19032336 AATAAACCGA
Statistics
Matches: 212, Mismatches: 26, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
75 2 0.01
76 205 0.97
77 5 0.02
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (76 bp):
CGCCCAGCGCTAGTCAGGTAAACTGACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTACCA
ACAATGAGTTG
Found at i:19033218 original size:40 final size:39
Alignment explanation
Indices: 19033132--19033209 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
19033122 AGCGCTTGTG
* *
19033132 AGAAAACGCCACTAAAAATTAAGCTTTAGGGGTGATTCTA
1 AGAAAACGCCACTAAAAA-TAAGCATTAGCGGTGATTCTA
*
19033172 AGAAAACGCCACTAAAAA-AATGCATTAGCGGTGTTTCT
1 AGAAAACGCCACTAAAAATAA-GCATTAGCGGTGATTCT
19033210 GCTGAAAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 2 0.06
39 14 0.41
40 18 0.53
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (39 bp):
AGAAAACGCCACTAAAAATAAGCATTAGCGGTGATTCTA
Found at i:19033376 original size:42 final size:41
Alignment explanation
Indices: 19033319--19033436 Score: 128
Period size: 41 Copynumber: 2.9 Consensus size: 41
19033309 TTTTAACGAG
* * *
19033319 TTTTTAAGTATGCGCCGCTAATGGTAGGGTGTTTTAGCGGCA
1 TTTTTAAGGAAGCGCCGCTAATGTTAGGGT-TTTTAGCGGCA
* ** * *
19033361 TTTTTAATGAAGCGCCGCTAATGTTACTGTTTTTAGTGGCG
1 TTTTTAAGGAAGCGCCGCTAATGTTAGGGTTTTTAGCGGCA
** *
19033402 TTTTTGGGGAAGCGCCTCTAATGTTAGGGTTTTTA
1 TTTTTAAGGAAGCGCCGCTAATGTTAGGGTTTTTA
19033437 CACTACACCA
Statistics
Matches: 62, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
41 38 0.61
42 24 0.39
ACGTcount: A:0.19, C:0.14, G:0.28, T:0.40
Consensus pattern (41 bp):
TTTTTAAGGAAGCGCCGCTAATGTTAGGGTTTTTAGCGGCA
Done.