Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 354 of 373
Found at i:117593506 original size:18 final size:19
Alignment explanation
Indices: 117593477--117593522 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
117593467 AATCTTAATT
*
117593477 TATTAATAATAAATTTTGAAA
1 TATTAATAAT--ATTTTAAAA
*
117593498 TTTTAATAATATTTTAAAA
1 TATTAATAATATTTTAAAA
117593517 TATTAA
1 TATTAA
117593523 ATATTAATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TATTAATAATATTTTAAAA
Found at i:117595210 original size:22 final size:21
Alignment explanation
Indices: 117595169--117595210 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
117595159 GGCTGTGTGA
*
117595169 GCCACACGGCCTAAGACATGG
1 GCCACACGGCCAAAGACATGG
*
117595190 GCCACACGGTCAAGAGACATG
1 GCCACACGGCCAA-AGACATG
117595211 CCTGTGTCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.31, C:0.31, G:0.29, T:0.10
Consensus pattern (21 bp):
GCCACACGGCCAAAGACATGG
Found at i:117596210 original size:13 final size:13
Alignment explanation
Indices: 117596192--117596226 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
117596182 ATGGATTCGT
117596192 AAATATTTATTAA
1 AAATATTTATTAA
117596205 AAATATTTATTAA
1 AAATATTTATTAA
117596218 AAATATTTA
1 AAATATTTA
117596227 CGAAGTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATATTTATTAA
Found at i:117596458 original size:5 final size:5
Alignment explanation
Indices: 117596432--117596489 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
117596422 ATGTGTTAAA
* *
117596432 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
117596481 ATATT ATAT
1 ATATT ATAT
117596490 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:117596468 original size:10 final size:9
Alignment explanation
Indices: 117596433--117596490 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
117596423 TGTGTTAAAA
117596433 TATATATAT
1 TATATATAT
*
117596442 TAAAT-TAT
1 TATATATAT
117596450 TAT-TATAT
1 TATATATAT
117596458 TATAGTATAT
1 TATA-TATAT
117596468 TATAT-TA-
1 TATATATAT
117596475 TATATTATAT
1 TATA-TATAT
117596485 TATATA
1 TATATA
117596491 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:117596480 original size:12 final size:12
Alignment explanation
Indices: 117596435--117596490 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
117596425 TGTTAAAATA
*
117596435 TATATATTAAAT
1 TATATATTATAT
117596447 TAT-TATTATATT
1 TATATATTATA-T
117596459 ATAGTATATTATAT
1 -TA-TATATTATAT
117596473 TATATATTATAT
1 TATATATTATAT
117596485 TATATA
1 TATATA
117596491 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:117597822 original size:18 final size:19
Alignment explanation
Indices: 117597799--117597837 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
117597789 ATATATAGAT
117597799 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
117597817 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
117597836 AT
1 AT
117597838 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:117598186 original size:39 final size:39
Alignment explanation
Indices: 117598076--117598210 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
117598066 GACCTCGAGT
* * * *
117598076 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
117598117 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
117598155 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
117598194 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
117598211 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:117598354 original size:18 final size:19
Alignment explanation
Indices: 117598333--117598373 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
117598323 AATGAAATGA
117598333 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
117598351 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
117598370 GAAA
1 GAAA
117598374 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:117599422 original size:27 final size:26
Alignment explanation
Indices: 117599386--117599450 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
117599376 ATTAAAACAC
117599386 ATAATCGGGAAGCACTCTAT-TGAGCCAT
1 ATAA-CGGGAAGC-CTC-ATGTGAGCCAT
117599414 ATAACGGGAAG-CTCATGTGAGCCAT
1 ATAACGGGAAGCCTCATGTGAGCCAT
* *
117599439 GTAACAGGAAGC
1 ATAACGGGAAGC
117599451 TTATCCAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 2 0.06
25 20 0.61
27 7 0.21
28 4 0.12
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (26 bp):
ATAACGGGAAGCCTCATGTGAGCCAT
Found at i:117600117 original size:21 final size:21
Alignment explanation
Indices: 117600093--117600133 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
117600083 AGTAAATTTA
*
117600093 ATTCAATTTAATACAATTCAT
1 ATTCAATTCAATACAATTCAT
*
117600114 ATTCAATTCAATCCAATTCA
1 ATTCAATTCAATACAATTCA
117600134 CATCTTAGGT
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:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTCAATTCAATACAATTCAT
Found at i:117602563 original size:40 final size:40
Alignment explanation
Indices: 117602501--117602636 Score: 155
Period size: 40 Copynumber: 3.4 Consensus size: 40
117602491 TCGATATATA
* * * *
117602501 GCACACTAAGTGCCGTACATAGTCGGAGCTATCTTAAATC
1 GCACACTAAGTGCCATATATAGTCGAAGCTATCTCAAATC
* * **
117602541 GCACACTAAGTGCCAAATATAGTCGAAGGTATCTCGATCTC
1 GCACACTAAGTGCCATATATAGTCGAAGCTATCTC-AAATC
* *
117602582 GCACACTAAGTGCCATATATAGTCGAAGCTATGTCAAATT
1 GCACACTAAGTGCCATATATAGTCGAAGCTATCTCAAATC
* *
117602622 GTACATTAAGTGCCA
1 GCACACTAAGTGCCA
117602637 CAAATAATCG
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
40 44 0.56
41 35 0.44
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (40 bp):
GCACACTAAGTGCCATATATAGTCGAAGCTATCTCAAATC
Found at i:117604377 original size:28 final size:28
Alignment explanation
Indices: 117604325--117604458 Score: 205
Period size: 28 Copynumber: 4.8 Consensus size: 28
117604315 TATTTTTTAA
* *
117604325 TAAATGACCCAATATTTTTACTTTTTGCG
1 TAAATGACCCAACATGTTTA-TTTTTGCG
* *
117604354 TAAATGGCCTAACATGTTTATTTTTGCG
1 TAAATGACCCAACATGTTTATTTTTGCG
*
117604382 TAAATGACCCAACATGTTTATTTTTGCT
1 TAAATGACCCAACATGTTTATTTTTGCG
117604410 TAAATGACCCAACATGTTTATTTTTGCG
1 TAAATGACCCAACATGTTTATTTTTGCG
*
117604438 TAAATGACCCAATATGTTTAT
1 TAAATGACCCAACATGTTTAT
117604459 ACTTCTTTTT
Statistics
Matches: 96, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 80 0.83
29 16 0.17
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (28 bp):
TAAATGACCCAACATGTTTATTTTTGCG
Found at i:117612431 original size:19 final size:18
Alignment explanation
Indices: 117612407--117612451 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
117612397 TGTCTTTTTT
117612407 TATTTTTTAATTTTTATA
1 TATTTTTTAATTTTTATA
*
117612425 -ATATTTTTCATTTTTATA
1 TAT-TTTTTAATTTTTATA
117612443 TATTATTTT
1 TATT-TTTT
117612452 GATTATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 2 0.09
18 15 0.65
19 6 0.26
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTTTTAATTTTTATA
Found at i:117612437 original size:18 final size:17
Alignment explanation
Indices: 117612401--117612446 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
117612391 TAAATGTGTC
*
117612401 TTTTTTTAT-TTTTTAA
1 TTTTTATATATTTTTAA
*
117612417 TTTTTATAATATTTTTCA
1 TTTTTAT-ATATTTTTAA
117612435 TTTTTATATATT
1 TTTTTATATATT
117612447 ATTTTGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 6 0.23
17 7 0.27
18 13 0.50
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTATATATTTTTAA
Found at i:117615648 original size:6 final size:6
Alignment explanation
Indices: 117615607--117615648 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
117615597 CTCGATGTTG
* * *
117615607 CCGCCA CCGCCA CCGCCA CCGCCT CCGCCT CCGCCT CCGCCT
1 CCGCCT CCGCCT CCGCCT CCGCCT CCGCCT CCGCCT CCGCCT
117615649 TCGTCCGTGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.07, C:0.67, G:0.17, T:0.10
Consensus pattern (6 bp):
CCGCCT
Found at i:117615648 original size:12 final size:12
Alignment explanation
Indices: 117615607--117615647 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
117615597 CTCGATGTTG
*
117615607 CCGCCACCGCCA
1 CCGCCACCGCCT
117615619 CCGCCACCGCCT
1 CCGCCACCGCCT
*
117615631 CCGCCTCCGCCT
1 CCGCCACCGCCT
117615643 CCGCC
1 CCGCC
117615648 TTCGTCCGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.07, C:0.68, G:0.17, T:0.07
Consensus pattern (12 bp):
CCGCCACCGCCT
Found at i:117621998 original size:23 final size:23
Alignment explanation
Indices: 117621916--117622002 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
117621906 CCTGATCAGT
*
117621916 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
117621938 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
117621958 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
* *
117621981 ATATGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
117622003 TCGATAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.63
22 1 0.02
23 18 0.33
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:117622399 original size:15 final size:15
Alignment explanation
Indices: 117622374--117622431 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
117622364 TCATATATAT
117622374 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
117622390 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
117622405 AATAATTTCAATCAA
1 TATAAATTCAATCAA
117622420 TATAAATTCAAT
1 TATAAATTCAAT
117622432 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:117623539 original size:5 final size:5
Alignment explanation
Indices: 117623529--117623589 Score: 68
Period size: 5 Copynumber: 11.4 Consensus size: 5
117623519 TTACTTATTT
* *
117623529 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATATC
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
117623577 ATATA ATAATA AT
1 ATATA AT-ATA AT
117623590 TTCTTATATT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
5 32 0.67
6 12 0.25
7 4 0.08
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:117623597 original size:16 final size:16
Alignment explanation
Indices: 117623536--117623589 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
117623526 TTTATATAAT
*
117623536 ATAAT-ATATAATATA
1 ATAATAATATCATATA
* *
117623551 AT-ATACTATAATATA
1 ATAATAATATCATATA
117623566 ATAATAATATCATATA
1 ATAATAATATCATATA
117623582 ATAATAAT
1 ATAATAAT
117623590 TTCTTATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
14 2 0.06
15 13 0.38
16 19 0.56
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (16 bp):
ATAATAATATCATATA
Found at i:117623716 original size:21 final size:22
Alignment explanation
Indices: 117623677--117623727 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
117623667 CATACAATTG
*
117623677 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
117623699 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
117623719 ATAAAATAA
1 TTAAAATAA
117623728 ATATATAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 9 0.36
22 8 0.32
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:117624060 original size:5 final size:5
Alignment explanation
Indices: 117624050--117624110 Score: 68
Period size: 5 Copynumber: 11.4 Consensus size: 5
117624040 TTACTTATTT
* *
117624050 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATATC
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
117624098 ATATA ATAATA AT
1 ATATA AT-ATA AT
117624111 TTCTTATATT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
5 32 0.67
6 12 0.25
7 4 0.08
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:117624118 original size:16 final size:16
Alignment explanation
Indices: 117624057--117624110 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
117624047 TTTATATAAT
*
117624057 ATAAT-ATATAATATA
1 ATAATAATATCATATA
* *
117624072 AT-ATACTATAATATA
1 ATAATAATATCATATA
117624087 ATAATAATATCATATA
1 ATAATAATATCATATA
117624103 ATAATAAT
1 ATAATAAT
117624111 TTCTTATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
14 2 0.06
15 13 0.38
16 19 0.56
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (16 bp):
ATAATAATATCATATA
Found at i:117624237 original size:21 final size:22
Alignment explanation
Indices: 117624198--117624248 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
117624188 CATACAATTG
*
117624198 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
117624220 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
117624240 ATAAAATAA
1 TTAAAATAA
117624249 ATATATAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 9 0.36
22 8 0.32
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:117624305 original size:521 final size:521
Alignment explanation
Indices: 117623324--117624372 Score: 2098
Period size: 521 Copynumber: 2.0 Consensus size: 521
117623314 AAATATCAAC
117623324 TTAATTTCATCAAAATCTTGTTCCAAAGCTTCTAAAACATCAAAATTAAGTAAAAAGGGCTAAAT
1 TTAATTTCATCAAAATCTTGTTCCAAAGCTTCTAAAACATCAAAATTAAGTAAAAAGGGCTAAAT
117623389 TGACTTACCAATTAAAGTTTAAAGCTTCAAAACATTGATTTTCCCTTTTCTCCCTTTCTTTCTTT
66 TGACTTACCAATTAAAGTTTAAAGCTTCAAAACATTGATTTTCCCTTTTCTCCCTTTCTTTCTTT
117623454 CTTTCTTTTCTTTCTCCCCTGTTCTTCTCTGTTTCATTTGCTTTCATTCTGTTTCTTATGTTTCT
131 CTTTCTTTTCTTTCTCCCCTGTTCTTCTCTGTTTCATTTGCTTTCATTCTGTTTCTTATGTTTCT
117623519 TTACTTATTTATATAATATAATATATAATATAATATACTATAATATAATAATAATATCATATAAT
196 TTACTTATTTATATAATATAATATATAATATAATATACTATAATATAATAATAATATCATATAAT
117623584 AATAATTTCTTATATTTTAAGTAATTATTTAGTTGTATTACAAGTGTATGTATTTAATTTATTAC
261 AATAATTTCTTATATTTTAAGTAATTATTTAGTTGTATTACAAGTGTATGTATTTAATTTATTAC
117623649 ACATGTATTTATAATTACCATACAATTGTTAAAATAATATTATAATATCATTAATATAAATTACA
326 ACATGTATTTATAATTACCATACAATTGTTAAAATAATATTATAATATCATTAATATAAATTACA
117623714 ATATAATAAAATAAATATATAGTCTTATTAAATAATACATTCATGAAAAAAAATCTAAGATTTTT
391 ATATAATAAAATAAATATATAGTCTTATTAAATAATACATTCATGAAAAAAAATCTAAGATTTTT
117623779 ATCCACATTTGCCGCCTCATTTATGGGACTTGGTATATTTACCTATTTGGTCCCTTTAACTTTTC
456 ATCCACATTTGCCGCCTCATTTATGGGACTTGGTATATTTACCTATTTGGTCCCTTTAACTTTTC
117623844 T
521 T
117623845 TTAATTTCATCAAAATCTTGTTCCAAAGCTTCTAAAACATCAAAATTAAGTAAAAAGGGCTAAAT
1 TTAATTTCATCAAAATCTTGTTCCAAAGCTTCTAAAACATCAAAATTAAGTAAAAAGGGCTAAAT
117623910 TGACTTACCAATTAAAGTTTAAAGCTTCAAAACATTGATTTTCCCTTTTCTCCCTTTCTTTCTTT
66 TGACTTACCAATTAAAGTTTAAAGCTTCAAAACATTGATTTTCCCTTTTCTCCCTTTCTTTCTTT
117623975 CTTTCTTTTCTTTCTCCCCTGTTCTTCTCTGTTTCATTTGCTTTCATTCTGTTTCTTATGTTTCT
131 CTTTCTTTTCTTTCTCCCCTGTTCTTCTCTGTTTCATTTGCTTTCATTCTGTTTCTTATGTTTCT
117624040 TTACTTATTTATATAATATAATATATAATATAATATACTATAATATAATAATAATATCATATAAT
196 TTACTTATTTATATAATATAATATATAATATAATATACTATAATATAATAATAATATCATATAAT
117624105 AATAATTTCTTATATTTTAAGTAATTATTTAGTTGTATTACAAGTGTATGTATTTAATTTATTAC
261 AATAATTTCTTATATTTTAAGTAATTATTTAGTTGTATTACAAGTGTATGTATTTAATTTATTAC
117624170 ACATGTATTTATAATTACCATACAATTGTTAAAATAATATTATAATATCATTAATATAAATTACA
326 ACATGTATTTATAATTACCATACAATTGTTAAAATAATATTATAATATCATTAATATAAATTACA
117624235 ATATAATAAAATAAATATATAGTCTTATTAAATAATACATTCATGAAAAAAAATCTAAGATTTTT
391 ATATAATAAAATAAATATATAGTCTTATTAAATAATACATTCATGAAAAAAAATCTAAGATTTTT
117624300 ATCCACATTTGCCGCCTCATTTATGGGACTTGGTATATTTACCTATTTGGTCCCTTTAACTTTTC
456 ATCCACATTTGCCGCCTCATTTATGGGACTTGGTATATTTACCTATTTGGTCCCTTTAACTTTTC
117624365 T
521 T
117624366 TTAATTT
1 TTAATTT
117624373 ATAATTAAAC
Statistics
Matches: 528, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
521 528 1.00
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.45
Consensus pattern (521 bp):
TTAATTTCATCAAAATCTTGTTCCAAAGCTTCTAAAACATCAAAATTAAGTAAAAAGGGCTAAAT
TGACTTACCAATTAAAGTTTAAAGCTTCAAAACATTGATTTTCCCTTTTCTCCCTTTCTTTCTTT
CTTTCTTTTCTTTCTCCCCTGTTCTTCTCTGTTTCATTTGCTTTCATTCTGTTTCTTATGTTTCT
TTACTTATTTATATAATATAATATATAATATAATATACTATAATATAATAATAATATCATATAAT
AATAATTTCTTATATTTTAAGTAATTATTTAGTTGTATTACAAGTGTATGTATTTAATTTATTAC
ACATGTATTTATAATTACCATACAATTGTTAAAATAATATTATAATATCATTAATATAAATTACA
ATATAATAAAATAAATATATAGTCTTATTAAATAATACATTCATGAAAAAAAATCTAAGATTTTT
ATCCACATTTGCCGCCTCATTTATGGGACTTGGTATATTTACCTATTTGGTCCCTTTAACTTTTC
T
Found at i:117624438 original size:19 final size:22
Alignment explanation
Indices: 117624414--117624460 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 22
117624404 ATCCTTTCCA
117624414 CTAATTACT-CTTAATT-AAG-
1 CTAATTACTACTTAATTAAAGT
*
117624433 CTAATT-TTACTTAATTAAAGT
1 CTAATTACTACTTAATTAAAGT
117624454 CTAATTA
1 CTAATTA
117624461 ACCACTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 13 0.57
20 3 0.13
21 6 0.26
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (22 bp):
CTAATTACTACTTAATTAAAGT
Found at i:117624678 original size:46 final size:46
Alignment explanation
Indices: 117624600--117624766 Score: 228
Period size: 46 Copynumber: 3.6 Consensus size: 46
117624590 TGCTATAGTG
*
117624600 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTC-TTTTCATGTCATGTTGCCATGGTA
* *
117624646 TCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCTTTTCATGTCATGTTGCCATGGTA
* * * * *
117624692 TCTTTTAACCATGGTTTTACACATTTCATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCTTTTCATGTCATGTTGCCATGGTA
* *
117624738 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTACTCTTTTCAT
117624767 TTCAGAAAAC
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
45 5 0.05
46 103 0.95
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCTTTTCATGTCATGTTGCCATGGTA
Found at i:117626838 original size:11 final size:11
Alignment explanation
Indices: 117626822--117626869 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
117626812 CTTTATATAC
117626822 TAATAAAATAA
1 TAATAAAATAA
*
117626833 TAATAAAATATCT
1 TAATAAAATA--A
* *
117626846 TATTAAAATAT
1 TAATAAAATAA
117626857 TAATAAAATAA
1 TAATAAAATAA
117626868 TA
1 TA
117626870 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:117628548 original size:48 final size:49
Alignment explanation
Indices: 117628496--117628588 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
117628486 GTAGCCCGAC
*
117628496 AATGATGGTTTACACTA-TTCAATATTTTACCA-TCTTGGATGGCTTGGA
1 AATGATGGTTTACACTATTTCAATATTCTACCATTC-TGGATGGCTTGGA
*
117628544 AATGATGGTTTGCACTATTTCAATATTCTACCATTCTGGATGGCT
1 AATGATGGTTTACACTATTTCAATATTCTACCATTCTGGATGGCT
117628589 CAAAAATGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
48 16 0.39
49 23 0.56
50 2 0.05
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (49 bp):
AATGATGGTTTACACTATTTCAATATTCTACCATTCTGGATGGCTTGGA
Found at i:117628596 original size:49 final size:48
Alignment explanation
Indices: 117628496--117628599 Score: 138
Period size: 49 Copynumber: 2.1 Consensus size: 48
117628486 GTAGCCCGAC
* ***
117628496 AATGATGGTTTACACTATTCAATATTTTACCATCTTGGATGGCTTGGA
1 AATGATGGTTTACACTATTCAATATTCTACCATCTTGGATGGCTCAAA
*
117628544 AATGATGGTTTGCACTATTTCAATATTCTACCAT-TCTGGATGGCTCAAA
1 AATGATGGTTTACACTA-TTCAATATTCTACCATCT-TGGATGGCTCAAA
117628593 AATGATG
1 AATGATG
117628600 ACTTTTATTG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
48 17 0.35
49 32 0.65
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (48 bp):
AATGATGGTTTACACTATTCAATATTCTACCATCTTGGATGGCTCAAA
Found at i:117632778 original size:21 final size:20
Alignment explanation
Indices: 117632748--117632803 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 20
117632738 TAAAAAAAAT
117632748 AAAAAAACTTATTTTTTGAA
1 AAAAAAACTTATTTTTTGAA
*
117632768 AAAAGAAACTTAATTTTTGAA
1 AAAA-AAACTTATTTTTTGAA
*
117632789 AAAAAAAGTTATTTT
1 AAAAAAACTTATTTT
117632804 GGAAAATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 13 0.41
21 19 0.59
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.38
Consensus pattern (20 bp):
AAAAAAACTTATTTTTTGAA
Found at i:117636366 original size:25 final size:23
Alignment explanation
Indices: 117636319--117636374 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
117636309 ATTACTACCG
117636319 ATCAGGATGCTCGCAGGAACTAT
1 ATCAGGATGCTCGCAGGAACTAT
**
117636342 ACATCAGGATGCTCG-AGAGGGCTAT
1 --ATCAGGATGCTCGCAG-GAACTAT
117636367 ATCAGGAT
1 ATCAGGAT
117636375 TACTCGTCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 8 0.29
24 2 0.07
25 18 0.64
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (23 bp):
ATCAGGATGCTCGCAGGAACTAT
Found at i:117643242 original size:29 final size:30
Alignment explanation
Indices: 117643200--117643266 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 30
117643190 AGGAATGAAT
*
117643200 GTGCAAACCCTAGGTGTGTGAA-CCCTTAC
1 GTGCAAACCCTAGGTATGTGAACCCCTTAC
* * *
117643229 GTGCGAACCTTAGGTATGTGAACCCCTTAT
1 GTGCAAACCCTAGGTATGTGAACCCCTTAC
117643259 GTGCAAAC
1 GTGCAAAC
117643267 TATGTAGTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 19 0.59
30 13 0.41
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (30 bp):
GTGCAAACCCTAGGTATGTGAACCCCTTAC
Found at i:117653248 original size:18 final size:18
Alignment explanation
Indices: 117653225--117653262 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
117653215 CCACAATAAA
117653225 ATGGCAAGATGTATATAT
1 ATGGCAAGATGTATATAT
117653243 ATGGCAAGATGTATATAT
1 ATGGCAAGATGTATATAT
117653261 AT
1 AT
117653263 TACTTAAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.34
Consensus pattern (18 bp):
ATGGCAAGATGTATATAT
Found at i:117654452 original size:77 final size:77
Alignment explanation
Indices: 117654370--117654528 Score: 282
Period size: 77 Copynumber: 2.1 Consensus size: 77
117654360 TAAAATTCAA
117654370 ATTTTCAAGCCAGTTTCACTATAGTCCTTTTAGGACCTCCTATTTCTAATTTCTACTATAAATTT
1 ATTTTCAAGCCAGTTTCACTATAGTCCTTTTAGGACCTCCTATTTCTAATTTCTACTATAAATTT
*
117654435 CAAAATTTATGC
66 CAAAATTTATAC
* *
117654447 ATTTTCAAGCCGGTTTCACTATAGTCCTTTTAGGATCTCCTATTTCTAATTTCTACTATAAATTT
1 ATTTTCAAGCCAGTTTCACTATAGTCCTTTTAGGACCTCCTATTTCTAATTTCTACTATAAATTT
*
117654512 CAAATTTTATAC
66 CAAAATTTATAC
117654524 ATTTT
1 ATTTT
117654529 AATCTCTATT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.45
Consensus pattern (77 bp):
ATTTTCAAGCCAGTTTCACTATAGTCCTTTTAGGACCTCCTATTTCTAATTTCTACTATAAATTT
CAAAATTTATAC
Found at i:117663300 original size:112 final size:114
Alignment explanation
Indices: 117663147--117663385 Score: 342
Period size: 112 Copynumber: 2.1 Consensus size: 114
117663137 CTTAATACAA
* * * *
117663147 GTATGGATACATAGGGGGTATTTTAGTAACTTTTCAATTGAGTTGAT-TCTC-CATAGACTTGTG
1 GTATAGATAGATAGGGGGTATTTTAGTAACTTCTCAATTGAGTTGATAT-TCGC-TAGACTTATG
* * *
117663210 ACACCAACTTAACACCAGGCATAAACTTAGTTAGGGGCTTAATATAT-TAT
64 ACACCAACTCAACACCAGGCATAAACTCAATTAGGGGCTTAATATATGTAT
*
117663260 GTATAGATAGATA-GGGGTATTTTAGTAACTTCTCAATTGAGTTGATATTCGCTAGACTTATGAT
1 GTATAGATAGATAGGGGGTATTTTAGTAACTTCTCAATTGAGTTGATATTCGCTAGACTTATGAC
* *
117663324 ACCAACTCAACATCAGGCATCAACTCAATTAGGGGCTTAATATATGTAT
66 ACCAACTCAACACCAGGCATAAACTCAATTAGGGGCTTAATATATGTAT
117663373 GTATAGATAGATA
1 GTATAGATAGATA
117663386 AATATATATT
Statistics
Matches: 113, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
112 84 0.74
113 29 0.26
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (114 bp):
GTATAGATAGATAGGGGGTATTTTAGTAACTTCTCAATTGAGTTGATATTCGCTAGACTTATGAC
ACCAACTCAACACCAGGCATAAACTCAATTAGGGGCTTAATATATGTAT
Found at i:117663838 original size:27 final size:26
Alignment explanation
Indices: 117663808--117663861 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
117663798 CTAAGGTATT
*
117663808 ATAAAATAAATATT-AAATTTATTAAAA
1 ATAAAA-AAAT-TTAAAAATTATTAAAA
*
117663835 ATAAAAATATTTAAAAATTATTAAAA
1 ATAAAAAAATTTAAAAATTATTAAAA
117663861 A
1 A
117663862 CCATGAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.08
26 16 0.67
27 6 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
ATAAAAAAATTTAAAAATTATTAAAA
Found at i:117663980 original size:9 final size:10
Alignment explanation
Indices: 117663947--117663993 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
117663937 TTTAGGCGTG
117663947 ATTTTTAATAA
1 ATTTTTAAT-A
*
117663958 ATTTTTAAAA
1 ATTTTTAATA
117663968 ATTTTTAAT-
1 ATTTTTAATA
117663977 ATTTTTAATA
1 ATTTTTAATA
117663987 ATTTTTA
1 ATTTTTA
117663994 TTACTTCTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
9 9 0.27
10 16 0.48
11 8 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:117663982 original size:19 final size:20
Alignment explanation
Indices: 117663947--117663993 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
117663937 TTTAGGCGTG
117663947 ATTTTTAATAAATTTTTAAAA
1 ATTTTTAAT-AATTTTTAAAA
*
117663968 ATTTTTAAT-ATTTTTAATA
1 ATTTTTAATAATTTTTAAAA
117663987 ATTTTTA
1 ATTTTTA
117663994 TTACTTCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.64
21 9 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTTTAATAATTTTTAAAA
Found at i:117664016 original size:3 final size:3
Alignment explanation
Indices: 117664003--117664037 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
117663993 ATTACTTCTT
117664003 ATA ATTA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
117664038 AATTTCATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:117669360 original size:23 final size:22
Alignment explanation
Indices: 117669313--117669384 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
117669303 TAATTTAATT
* *
117669313 TTTTTAAAATTAT-AAAAAATAA
1 TTTTTAAAATAATGAAAATAT-A
*
117669335 TTTATTAAAATAATGAAATTATA
1 TTT-TTAAAATAATGAAAATATA
** *
117669358 TTTTTATTATCATGAAAATATA
1 TTTTTAAAATAATGAAAATATA
117669380 TTTTT
1 TTTTT
117669385 TAATTTCGTC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
22 23 0.56
23 13 0.32
24 5 0.12
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (22 bp):
TTTTTAAAATAATGAAAATATA
Found at i:117681068 original size:6 final size:6
Alignment explanation
Indices: 117681054--117681086 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
117681044 TCATCTATAC
117681054 AAAAA- AAAAAG AAAAAG AAAAAG AAAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAA
117681087 GAGCTGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 15 0.58
7 6 0.23
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:117681074 original size:12 final size:13
Alignment explanation
Indices: 117681054--117681086 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
117681044 TCATCTATAC
117681054 AAAAA-AAAAAG-
1 AAAAAGAAAAAGA
117681065 AAAAAGAAAAAGA
1 AAAAAGAAAAAGA
117681078 AAAAAGAAA
1 AAAAAGAAA
117681087 GAGCTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 6 0.30
13 9 0.45
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAGA
Found at i:117690015 original size:30 final size:30
Alignment explanation
Indices: 117689981--117690041 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
117689971 AGCAAACTGT
117689981 ATAAAGTAGTAAGGAATTGACAAAATGATC
1 ATAAAGTAGTAAGGAATTGACAAAATGATC
*
117690011 ATAAAGTAGTAAGGAATTGATAAAATGATC
1 ATAAAGTAGTAAGGAATTGACAAAATGATC
117690041 A
1 A
117690042 ATTTAGTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.51, C:0.05, G:0.20, T:0.25
Consensus pattern (30 bp):
ATAAAGTAGTAAGGAATTGACAAAATGATC
Found at i:117691748 original size:44 final size:44
Alignment explanation
Indices: 117691686--117691780 Score: 174
Period size: 44 Copynumber: 2.2 Consensus size: 44
117691676 ACAGTGCGAC
*
117691686 AAATG-TTCTCTTTAGAAGTTCTAAGTTGAAGGATATGTAGAAA
1 AAATGTTTCTCTTTAGAAGTTCTAAGTTGAAGGATATGTAAAAA
117691729 AAATGTTTCTCTTTAGAAGTTCTAAGTTGAAGGATATGTAAAAA
1 AAATGTTTCTCTTTAGAAGTTCTAAGTTGAAGGATATGTAAAAA
117691773 AAATGTTT
1 AAATGTTT
117691781 TACTTCAACT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 5 0.10
44 45 0.90
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.37
Consensus pattern (44 bp):
AAATGTTTCTCTTTAGAAGTTCTAAGTTGAAGGATATGTAAAAA
Found at i:117692180 original size:41 final size:40
Alignment explanation
Indices: 117692051--117692329 Score: 276
Period size: 41 Copynumber: 6.9 Consensus size: 40
117692041 GGAAAATAGG
* * *
117692051 GCAATAGCGGCG-TTTTACCAAAAACGCCGCTAAAAACAAA
1 GCAATAGCGGCGCTTTT-GCTAAAACGCCGCTAAAAACAGA
** ** *
117692091 GCAATAATGGCTTTTTTG-TGAAAATGCCGCTAAAAACAGA
1 GCAATAGCGGCGCTTTTGCT-AAAACGCCGCTAAAAACAGA
* * *
117692131 GCAATAGCGGCG-TTTTAACAAAAACTCCGCTAAAAACCAGA
1 GCAATAGCGGCGCTTTT-GCTAAAACGCCGCTAAAAA-CAGA
* * *
117692172 GCATTAGCGGCGCTTTTGGTGAAACGCCGCTAAAAACCAGA
1 GCAATAGCGGCGCTTTTGCTAAAACGCCGCTAAAAA-CAGA
* * *
117692213 GCAATAGCAGCGTTTTTTGTTAAAACGCCGCTAAAAACAGA
1 GCAATAGCGGCG-CTTTTGCTAAAACGCCGCTAAAAACAGA
* *
117692254 GCAATAGCGGCGCTTTTGGTAAAGCGCCGCTAAAAACTAGA
1 GCAATAGCGGCGCTTTTGCTAAAACGCCGCTAAAAAC-AGA
* * *
117692295 GCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAA
1 GCAATAGCGGCGCTTTTGCTAAAACGCCGCTAAAA
117692330 GTCATATAAT
Statistics
Matches: 198, Mismatches: 33, Indels: 15
0.80 0.13 0.06
Matches are distributed among these distances:
39 4 0.02
40 72 0.36
41 97 0.49
42 25 0.13
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (40 bp):
GCAATAGCGGCGCTTTTGCTAAAACGCCGCTAAAAACAGA
Found at i:117692227 original size:82 final size:81
Alignment explanation
Indices: 117692051--117692329 Score: 316
Period size: 82 Copynumber: 3.4 Consensus size: 81
117692041 GGAAAATAGG
* * ** * *
117692051 GCAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAACAAAGCAATAATGGC-TTTTTTGTGAAAA
1 GCAATAGCGGCGTTTTAACAAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTG-AAA
*
117692115 TGCCGCTAAAAA-CAGA
65 CGCCGCTAAAAACCAGA
* *
117692131 GCAATAGCGGCGTTTTAACAAAAACTCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTGAAA
1 GCAATAGCGGCGTTTTAACAAAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGCTTTTGGTGAAA
117692196 CGCCGCTAAAAACCAGA
65 CGCCGCTAAAAACCAGA
* ****
117692213 GCAATAGCAGCGTTTTTTGTTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGGT-AAA
1 GCAATAGCGGCG-TTTTAACAAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTGAAA
*
117692277 GCGCCGCTAAAAACTAGA
65 -CGCCGCTAAAAACCAGA
* *
117692295 GCATTAGCGGCGCTTT--CGATAAAACGCCGCTAAAA
1 GCAATAGCGGCGTTTTAAC-A-AAAACGCCGCTAAAA
117692330 GTCATATAAT
Statistics
Matches: 170, Mismatches: 22, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
80 34 0.20
81 46 0.27
82 71 0.42
83 19 0.11
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (81 bp):
GCAATAGCGGCGTTTTAACAAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTGAAAC
GCCGCTAAAAACCAGA
Found at i:117692284 original size:123 final size:121
Alignment explanation
Indices: 117692071--117692329 Score: 349
Period size: 123 Copynumber: 2.1 Consensus size: 121
117692061 CGTTTTACCA
** *
117692071 AAAACGCCGCTAAAAACAAAGCAATAATGGCTTTTTTGTGAAAATGCCGCTAAAAACAGAGCAAT
1 AAAACGCCGCTAAAAACAAAGCAATAACAGCTTTTTTGTGAAAACGCCGCTAAAAACAGAGCAAT
* * *
117692136 AGCGGCGTTTTAACAAAAACTCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
66 AGCGGCGTTTTAACAAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGAT
* * * *
117692192 GAAACGCCGCTAAAAACCAGAGCAATAGCAGCGTTTTTTGTTAAAACGCCGCTAAAAACAGAGCA
1 AAAACGCCGCTAAAAA-CAAAGCAATAACAGC-TTTTTTGTGAAAACGCCGCTAAAAACAGAGCA
*** * *
117692257 ATAGCGGCGCTTTT-GGTAAAGCGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTCGAT
64 ATAGCGGCG-TTTTAACAAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGAT
117692315 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
117692330 GTCATATAAT
Statistics
Matches: 119, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
121 15 0.13
122 11 0.09
123 89 0.75
124 4 0.03
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (121 bp):
AAAACGCCGCTAAAAACAAAGCAATAACAGCTTTTTTGTGAAAACGCCGCTAAAAACAGAGCAAT
AGCGGCGTTTTAACAAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGAT
Found at i:117692432 original size:17 final size:17
Alignment explanation
Indices: 117692384--117692433 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
117692374 ACTAATCTAT
117692384 AACCCCTAAAAAACT--A
1 AACCCCT-AAAAACTAAA
**
117692400 AACCCCTAAATCCTAAA
1 AACCCCTAAAAACTAAA
117692417 AACCCCTAAAAACTAAA
1 AACCCCTAAAAACTAAA
117692434 CTATAACCCC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 5 0.18
16 7 0.25
17 16 0.57
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.14
Consensus pattern (17 bp):
AACCCCTAAAAACTAAA
Found at i:117692442 original size:21 final size:22
Alignment explanation
Indices: 117692417--117692457 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
117692407 AAATCCTAAA
117692417 AACCCCTAAAA-ACTAAACTAT
1 AACCCCTAAAACACTAAACTAT
*
117692438 AACCCCTAAAACCCTAAACT
1 AACCCCTAAAACACTAAACT
117692458 CCAAAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (22 bp):
AACCCCTAAAACACTAAACTAT
Found at i:117692942 original size:17 final size:18
Alignment explanation
Indices: 117692917--117692952 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
117692907 CCTAAACTCT
*
117692917 TAAACCCCTAAAC-CTAA
1 TAAAACCCTAAACACTAA
117692934 TAAAACCCTAAACACTAA
1 TAAAACCCTAAACACTAA
117692952 T
1 T
117692953 CTATAACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (18 bp):
TAAAACCCTAAACACTAA
Found at i:117696881 original size:22 final size:23
Alignment explanation
Indices: 117696830--117696882 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
117696820 AGAAAACCAT
117696830 TTTAT-GTGTTAAATGCTGAAAA
1 TTTATGGTGTTAAATGCTGAAAA
* *
117696852 TTTA-GGTGTTAAATGTTG-CAA
1 TTTATGGTGTTAAATGCTGAAAA
117696873 TTTATGGTGT
1 TTTATGGTGT
117696883 CTGAAATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.28, C:0.04, G:0.23, T:0.45
Consensus pattern (23 bp):
TTTATGGTGTTAAATGCTGAAAA
Found at i:117698382 original size:43 final size:43
Alignment explanation
Indices: 117698317--117698414 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 43
117698307 TTAATTTTTA
* *
117698317 TGACCTTTAGCGGCGTTCGTGGGAAAAGCGCGGCTAAAGGCCC
1 TGACCTTTAGCGACGTTCGTGGGAAAAGCGCCGCTAAAGGCCC
* * * **
117698360 TGACCTTTAGCGACGTTTGTGGGAAAAGTGCCGCTAAATGTTC
1 TGACCTTTAGCGACGTTCGTGGGAAAAGCGCCGCTAAAGGCCC
117698403 TGACCTTTAGCG
1 TGACCTTTAGCG
117698415 GCCGCAAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (43 bp):
TGACCTTTAGCGACGTTCGTGGGAAAAGCGCCGCTAAAGGCCC
Found at i:117700748 original size:26 final size:27
Alignment explanation
Indices: 117700713--117700763 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
117700703 AATAATTTAA
*
117700713 AAATATAAAAATATTCA-AAAAAAATT
1 AAATATAAAAAAATTCATAAAAAAATT
117700739 AAATATAAAAAAATTCATAAAAAAA
1 AAATATAAAAAAATTCATAAAAAAA
117700764 AATTAGCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (27 bp):
AAATATAAAAAAATTCATAAAAAAATT
Found at i:117700762 original size:14 final size:15
Alignment explanation
Indices: 117700729--117700768 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
117700719 AAAAATATTC
117700729 AAAAAAAATTAAATA
1 AAAAAAAATTAAATA
* *
117700744 TAAAAAAATT-CATA
1 AAAAAAAATTAAATA
117700758 AAAAAAAATTA
1 AAAAAAAATTA
117700769 GCATGAAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAAAAATTAAATA
Found at i:117701464 original size:26 final size:26
Alignment explanation
Indices: 117701434--117701490 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
117701424 TAAAAAAAAT
* *
117701434 AAAAT-ATTAAATTTCAATATAACAAC
1 AAAATAATTAAA-TTAAATATAACAAA
*
117701460 AAAATAATTAAATTAAATATAATAAA
1 AAAATAATTAAATTAAATATAACAAA
117701486 AAAAT
1 AAAAT
117701491 TCTTACCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (26 bp):
AAAATAATTAAATTAAATATAACAAA
Found at i:117703847 original size:51 final size:51
Alignment explanation
Indices: 117703744--117703849 Score: 119
Period size: 51 Copynumber: 2.1 Consensus size: 51
117703734 AAATATAAAT
* *
117703744 ATAAATATTTATATTTACGTAAATGCACCATATCTAAACAAAATAAATTAA
1 ATAAATATTTATATTTACGTAAATACACCAAATCTAAACAAAATAAATTAA
** *
117703795 ATAAATATTTATATTTATTTAAA-ACATCAAATCTGAAA-AACAATTAAA-TAA
1 ATAAATATTTATATTTACGTAAATACACCAAATCT-AAACAA-AA-TAAATTAA
117703846 ATAA
1 ATAA
117703850 GATCTTGAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
50 10 0.21
51 33 0.70
52 4 0.09
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (51 bp):
ATAAATATTTATATTTACGTAAATACACCAAATCTAAACAAAATAAATTAA
Found at i:117705595 original size:33 final size:34
Alignment explanation
Indices: 117705533--117705598 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
117705523 GATCAAACAT
117705533 AACCCAGATGGCTCTGTTGAAAGGTATAAAGTCC
1 AACCCAGATGGCTCTGTTGAAAGGTATAAAGTCC
117705567 AACCCAGATGGCTCTGTTG-AAGGTATAAAGTC
1 AACCCAGATGGCTCTGTTGAAAGGTATAAAGTC
117705599 TATCTTGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 13 0.41
34 19 0.59
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (34 bp):
AACCCAGATGGCTCTGTTGAAAGGTATAAAGTCC
Found at i:117709825 original size:29 final size:31
Alignment explanation
Indices: 117709783--117709843 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 31
117709773 TGGCCCAAGA
*
117709783 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATACTCAAAATTTGAAGGACTAATAGT
*
117709813 GTAAATA-TGAAAATTTGAAGGACTAATAGT
1 GTAAATACTCAAAATTTGAAGGACTAATAGT
117709843 G
1 G
117709844 CAAACATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.46, C:0.05, G:0.20, T:0.30
Consensus pattern (31 bp):
GTAAATACTCAAAATTTGAAGGACTAATAGT
Found at i:117712022 original size:46 final size:46
Alignment explanation
Indices: 117711954--117712277 Score: 443
Period size: 46 Copynumber: 7.0 Consensus size: 46
117711944 GTGTGCTCTT
* * *
117711954 TGATATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
117712000 TGATATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
117712046 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
117712092 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
117712138 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
117712184 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
117712230 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
117712276 TG
1 TG
117712278 TCAAAGATAA
Statistics
Matches: 254, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.00
46 253 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:117712579 original size:16 final size:17
Alignment explanation
Indices: 117712558--117712590 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
117712548 ATGATGGAGC
117712558 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
117712574 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
117712591 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:117713893 original size:16 final size:17
Alignment explanation
Indices: 117713862--117713894 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
117713852 TTTATAAGTA
117713862 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
117713879 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
117713895 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:117714400 original size:46 final size:46
Alignment explanation
Indices: 117714175--117714402 Score: 282
Period size: 46 Copynumber: 5.0 Consensus size: 46
117714165 TTATCTTTGA
* * * * * *
117714175 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* ** ***
117714221 C-TGGTTGCCACGGTATCTTTCAACCAATGGTCTTATTCA-TTCCCGT
1 CAT-GTTGCCATGGTATCTTTCAACC-ATGGTCTTACACATTTCATAT
*
117714267 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
117714313 CCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
117714359 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
117714403 TTTAGAAAGC
Statistics
Matches: 160, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
45 15 0.09
46 132 0.82
47 13 0.08
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:117720245 original size:22 final size:22
Alignment explanation
Indices: 117720217--117720281 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 22
117720207 CCGATGCTAT
117720217 TACCTTCAATAATATTCACTTA
1 TACCTTCAATAATATTCACTTA
* *
117720239 TACCTTCAATGGAAATAATTTACTTT
1 TACCTTCAAT---AAT-ATTCACTTA
*
117720265 TACCTTCAATATTATTC
1 TACCTTCAATAATATTC
117720282 TCTTTAATAG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
22 13 0.37
23 2 0.06
25 3 0.09
26 17 0.49
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (22 bp):
TACCTTCAATAATATTCACTTA
Found at i:117720286 original size:22 final size:22
Alignment explanation
Indices: 117720216--117720286 Score: 54
Period size: 22 Copynumber: 3.0 Consensus size: 22
117720206 GCCGATGCTA
* *
117720216 TTACCTTCAATAATATTCACTT
1 TTACCTTCAATATTATTCTCTT
* *
117720238 ATACCTTCAATGGAAATAATT-TACTT
1 TTACCTTCAAT----ATTATTCT-CTT
117720264 TTACCTTCAATATTATTCTCTT
1 TTACCTTCAATATTATTCTCTT
117720286 T
1 T
117720287 AATAGTAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
22 19 0.51
23 1 0.03
26 17 0.46
ACGTcount: A:0.31, C:0.20, G:0.03, T:0.46
Consensus pattern (22 bp):
TTACCTTCAATATTATTCTCTT
Found at i:117720391 original size:5 final size:5
Alignment explanation
Indices: 117720381--117720405 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
117720371 GAGAATTTTA
117720381 CTTTC CTTTC CTTTC CTTTC CTTTC
1 CTTTC CTTTC CTTTC CTTTC CTTTC
117720406 ATCTCTCATC
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:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
CTTTC
Found at i:117723463 original size:31 final size:32
Alignment explanation
Indices: 117723381--117723463 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 32
117723371 AAATGGTAAA
* *
117723381 TTTGATACAATTATACATA-TGAAACTTTAAT
1 TTTGATTCAATTATACACATTGAAACTTTAAT
* * * * * *
117723412 TGTGGTTCAAATATATACATTG-AATTTTCAT
1 TTTGATTCAATTATACACATTGAAACTTTAAT
117723443 TTTGATTCAATTATACACATT
1 TTTGATTCAATTATACACATT
117723464 TAAAGAAATA
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
31 37 0.95
32 2 0.05
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (32 bp):
TTTGATTCAATTATACACATTGAAACTTTAAT
Found at i:117731952 original size:29 final size:29
Alignment explanation
Indices: 117731910--117731966 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
117731900 CTTCTTGCCT
117731910 TTCTAGCAACAAAAACAAAAATCAATGGC
1 TTCTAGCAACAAAAACAAAAATCAATGGC
* *
117731939 TTCTAGCAGCAAAAGCAAAAATCAATGG
1 TTCTAGCAACAAAAACAAAAATCAATGG
117731967 TCCTCAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.49, C:0.19, G:0.14, T:0.18
Consensus pattern (29 bp):
TTCTAGCAACAAAAACAAAAATCAATGGC
Found at i:117732350 original size:18 final size:18
Alignment explanation
Indices: 117732323--117732358 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
117732313 AGAAAATATG
*
117732323 TTGCTGCAACATGCATAC
1 TTGCTACAACATGCATAC
117732341 TTGCTACAACATGCATAC
1 TTGCTACAACATGCATAC
117732359 AAGCTGTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (18 bp):
TTGCTACAACATGCATAC
Found at i:117741194 original size:21 final size:20
Alignment explanation
Indices: 117741154--117741192 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
117741144 AAAGATTTAA
* *
117741154 TTGGGTTTTTATAAGAAAAT
1 TTGGATTTTTACAAGAAAAT
117741174 TTGGATTTTTACAAGAAAA
1 TTGGATTTTTACAAGAAAA
117741193 ATCATTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (20 bp):
TTGGATTTTTACAAGAAAAT
Found at i:117742629 original size:13 final size:13
Alignment explanation
Indices: 117742611--117742637 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
117742601 ACCAAAGAAA
117742611 AGTCTTCCATATT
1 AGTCTTCCATATT
117742624 AGTCTTCCATATT
1 AGTCTTCCATATT
117742637 A
1 A
117742638 TTCTCCAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (13 bp):
AGTCTTCCATATT
Found at i:117747509 original size:15 final size:15
Alignment explanation
Indices: 117747485--117747514 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
117747475 TTTGGGCTGT
117747485 TTTGTATTAGGTTTG
1 TTTGTATTAGGTTTG
*
117747500 TTTGTTTTAGGTTTG
1 TTTGTATTAGGTTTG
117747515 GGCCTTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.27, T:0.63
Consensus pattern (15 bp):
TTTGTATTAGGTTTG
Found at i:117749222 original size:33 final size:33
Alignment explanation
Indices: 117749180--117749246 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
117749170 TTTGAATTTG
117749180 ATGTTCAATTTCTTTTGTGTGTAATTTAAGCTA
1 ATGTTCAATTTCTTTTGTGTGTAATTTAAGCTA
117749213 ATGTTCAATTTCTTTTGTGTGTAATTTAAGCTA
1 ATGTTCAATTTCTTTTGTGTGTAATTTAAGCTA
117749246 A
1 A
117749247 GTTTTAGTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.25, C:0.09, G:0.15, T:0.51
Consensus pattern (33 bp):
ATGTTCAATTTCTTTTGTGTGTAATTTAAGCTA
Found at i:117750539 original size:151 final size:151
Alignment explanation
Indices: 117750345--117750718 Score: 601
Period size: 151 Copynumber: 2.5 Consensus size: 151
117750335 TGGTTTTTTT
*
117750345 TAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATTTTA
1 TAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTA
* * *
117750410 AAAATACAAACAAA-GGGACAAAATTAGGGTTA-TTA-TTAATTAATATAAAAAACACTAAAATA
66 AAAATACAAA-AAAGGGGACAAAATCAAGGTTATTTACTAAATTAATATAAAAAACACTAAAATA
*
117750472 ATACATTTGAAACATTATGTAC
130 ATACATTTGAAACATTATATAC
* *
117750494 TAAAATAATATAAAAAAAATAAAATACAAAAATAGTATATGTTAAAAAATAAAATCCGAAAATTT
1 TAAAATAATAT--AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTT
*
117750559 TAAAAATACAAAAAAGGGGCCAAAATCAAGGTTATTTACTAAATTAATATAAAAAACACTAAAAT
64 TAAAAATACAAAAAAGGGGACAAAATCAAGGTTATTTACTAAATTAATATAAAAAACACTAAAAT
*
117750624 AATACATTTGAAACATTATATAT
129 AATACATTTGAAACATTATATAC
* *
117750647 TAAAATAATATAAAAAATAAAATACGAAAATAGAATATTTTAAAAAATAAGATCCGAAAATTTTA
1 TAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTA
117750712 AAAATAC
66 AAAATAC
117750719 GAATTTTTTT
Statistics
Matches: 207, Mismatches: 13, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
149 11 0.05
150 3 0.01
151 133 0.64
152 3 0.01
153 57 0.28
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (151 bp):
TAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTA
AAAATACAAAAAAGGGGACAAAATCAAGGTTATTTACTAAATTAATATAAAAAACACTAAAATAA
TACATTTGAAACATTATATAC
Found at i:117752327 original size:12 final size:12
Alignment explanation
Indices: 117752310--117752361 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
117752300 ATAATATTTA
117752310 TATTATTACTAT
1 TATTATTACTAT
*
117752322 TATTATTATTAT
1 TATTATTACTAT
* *
117752334 CATTATTAGTA-
1 TATTATTACTAT
117752345 TATT-TATACTAT
1 TATTAT-TACTAT
117752357 TATTA
1 TATTA
117752362 GCTTTATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
10 1 0.03
11 7 0.22
12 24 0.75
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.58
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:117752360 original size:3 final size:3
Alignment explanation
Indices: 117752254--117752341 Score: 52
Period size: 3 Copynumber: 27.0 Consensus size: 3
117752244 CTTTATATAT
* *
117752254 TTA TTA TTA TTA TGTGA TCTA TTG TTA TTA TTA CCTTT TTA TGTA TATA
1 TTA TTA TTA TTA T-T-A T-TA TTA TTA TTA TTA --TTA TTA T-TA T-TA
* * *
117752303 ATA TT- TATA TTA TTA CTA TTA TTA TTA TTA TCA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
117752342 GTATATTTAT
Statistics
Matches: 66, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
2 1 0.02
3 51 0.77
4 9 0.14
5 5 0.08
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:117752494 original size:12 final size:13
Alignment explanation
Indices: 117752454--117752508 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
117752444 AATCTATGTA
*
117752454 TTATATATATGTT
1 TTATATATATATT
*
117752467 TTCA-ATATTGTATT
1 TT-ATATA-TATATT
117752481 TTATATATAT-TT
1 TTATATATATATT
*
117752493 TTATGTATATATT
1 TTATATATATATT
117752506 TTA
1 TTA
117752509 ACACTATTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 11 0.32
13 13 0.38
14 10 0.29
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (13 bp):
TTATATATATATT
Found at i:117753138 original size:16 final size:17
Alignment explanation
Indices: 117753100--117753151 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 17
117753090 ATTTTAAATA
*
117753100 TTTTTATATTATGTATATT
1 TTTTTATA-TAT-TATGTT
*
117753119 TTTTTTTAATATTATG-T
1 TTTTTAT-ATATTATGTT
117753136 TTTTTATATATTATGT
1 TTTTTATATATTATGT
117753152 ATATATTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 8 0.29
17 7 0.25
18 3 0.11
19 9 0.32
20 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
TTTTTATATATTATGTT
Found at i:117753379 original size:25 final size:26
Alignment explanation
Indices: 117753342--117753399 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
117753332 AGTATTTCTA
117753342 ATATA-TATGGTATATGT-TCATTTTT
1 ATATATTATGGTATATGTATC-TTTTT
117753367 ATATATTAT-GTATATGTATCTTTTT
1 ATATATTATGGTATATGTATCTTTTT
117753392 A-ATATTAT
1 ATATATTAT
117753400 ATCTTTATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
24 7 0.23
25 19 0.61
26 5 0.16
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (26 bp):
ATATATTATGGTATATGTATCTTTTT
Found at i:117753595 original size:3 final size:3
Alignment explanation
Indices: 117753587--117753633 Score: 67
Period size: 3 Copynumber: 15.0 Consensus size: 3
117753577 TTTATATATC
*
117753587 ATT ATT ATT GGTT TATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT -ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
117753634 CTCGCTTTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 36 0.90
4 4 0.10
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:117755800 original size:21 final size:23
Alignment explanation
Indices: 117755750--117755800 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 23
117755740 CCATTTTCGT
117755750 TATTAAT-TTTTGTCTTATACCA
1 TATTAATATTTTGTCTTATACCA
*
117755772 T-TTAAATATTTT-T-TTATACTA
1 TATT-AATATTTTGTCTTATACCA
117755793 TATTAATA
1 TATTAATA
117755801 ACCCCCCCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 14 0.56
22 7 0.28
23 4 0.16
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (23 bp):
TATTAATATTTTGTCTTATACCA
Found at i:117758385 original size:22 final size:23
Alignment explanation
Indices: 117758340--117758386 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
117758330 AAACCTACAT
*
117758340 AAACATTATAAAAAATATATTAA
1 AAACATTATAAAAAAAATATTAA
117758363 AAAC-TTATAAAAAGAAATA-TAA
1 AAACATTATAAAAA-AAATATTAA
117758385 AA
1 AA
117758387 TTTGTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (23 bp):
AAACATTATAAAAAAAATATTAA
Found at i:117758450 original size:39 final size:35
Alignment explanation
Indices: 117758407--117758496 Score: 85
Period size: 35 Copynumber: 2.4 Consensus size: 35
117758397 TGAGTAGTAA
117758407 ATTTTAATTTCTAAATAATTTATATAA-TTTTTATATAGT
1 ATTTTAATTT-T--ATAATTTATATAACTTTTTATA-A-T
* *
117758446 ATTTT-ATTTTATAATTTTTTTAACTTTTTATAAT
1 ATTTTAATTTTATAATTTATATAACTTTTTATAAT
117758480 ATTTTAATAATTTATAA
1 ATTTTAAT--TTTATAA
117758497 AAATTTCAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
34 6 0.13
35 14 0.31
36 8 0.18
37 8 0.18
38 4 0.09
39 5 0.11
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (35 bp):
ATTTTAATTTTATAATTTATATAACTTTTTATAAT
Found at i:117767921 original size:14 final size:14
Alignment explanation
Indices: 117767902--117767928 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
117767892 GAATGATCGC
117767902 AAAATAATAAGAAA
1 AAAATAATAAGAAA
117767916 AAAATAATAAGAA
1 AAAATAATAAGAA
117767929 CATGCATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (14 bp):
AAAATAATAAGAAA
Found at i:117769535 original size:22 final size:23
Alignment explanation
Indices: 117769510--117769574 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
117769500 TATTGAAAAT
*
117769510 ACATGTTCATAATATATA-TAAA
1 ACATATTCATAATATATATTAAA
117769532 ACATATAT-ATAATATAATATTAAA
1 ACATAT-TCATAATAT-ATATTAAA
*
117769556 ACATTTTACATAATATATA
1 ACATATT-CATAATATATA
117769575 CACATATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
22 12 0.33
23 5 0.14
24 12 0.33
25 7 0.19
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (23 bp):
ACATATTCATAATATATATTAAA
Found at i:117769568 original size:25 final size:23
Alignment explanation
Indices: 117769517--117769572 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 23
117769507 AATACATGTT
117769517 CATAATAT-ATATAAAACATATA
1 CATAATATAATATAAAACATATA
* *
117769539 TATAATATAATATTAAAACATTTTA
1 CATAATATAATA-TAAAACA-TATA
117769564 CATAATATA
1 CATAATATA
117769573 TACACATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.25
23 3 0.11
24 7 0.25
25 11 0.39
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (23 bp):
CATAATATAATATAAAACATATA
Found at i:117769742 original size:21 final size:21
Alignment explanation
Indices: 117769717--117769770 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
117769707 AATATATACG
117769717 TAATATGTATAATA-AAAATAA
1 TAATATGTATAATATAAAA-AA
** *
117769738 TAATATACATAATATATAAAA
1 TAATATGTATAATATAAAAAA
117769759 TATATATGTATA
1 TA-ATATGTATA
117769771 TAACAAAACA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (21 bp):
TAATATGTATAATATAAAAAA
Found at i:117769911 original size:3 final size:3
Alignment explanation
Indices: 117769903--117769941 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
117769893 ATACACTATT
*
117769903 ATA ATA ATA ATA ATA ATA ATA ATA A-A TATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
117769942 TTGAAACACA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 1 0.03
3 30 0.94
4 1 0.03
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:117770014 original size:12 final size:12
Alignment explanation
Indices: 117769999--117770032 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
117769989 AAAATAAGCC
117769999 TATACATAAATA
1 TATACATAAATA
* *
117770011 TATATATACATA
1 TATACATAAATA
117770023 TATACATAAA
1 TATACATAAA
117770033 ACATATATAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (12 bp):
TATACATAAATA
Found at i:117770025 original size:8 final size:8
Alignment explanation
Indices: 117769999--117770041 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
117769989 AAAATAAGCC
117769999 TATACATA
1 TATACATA
* *
117770007 AATATATA
1 TATACATA
117770015 TATACATA
1 TATACATA
117770023 TATACATA
1 TATACATA
*
117770031 -AAACATA
1 TATACATA
117770038 TATA
1 TATA
117770042 AACATTGGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (8 bp):
TATACATA
Found at i:117770839 original size:23 final size:23
Alignment explanation
Indices: 117770795--117770839 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
117770785 AATCGAAAAG
* *
117770795 GTTAGTTTTTTTTTCTTTTTTTT
1 GTTAGTTTTTTTTTATTATTTTT
117770818 GTTA-TTTTTGTTTTATTATTTT
1 GTTAGTTTTT-TTTTATTATTTT
117770840 ATTATATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.09, C:0.02, G:0.09, T:0.80
Consensus pattern (23 bp):
GTTAGTTTTTTTTTATTATTTTT
Found at i:117771787 original size:17 final size:17
Alignment explanation
Indices: 117771749--117771789 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
117771739 ATATCCCAAA
117771749 AAAAAT-AATTAATTAC
1 AAAAATAAATTAATTAC
*
117771765 ATAAATAAATTTAATT-C
1 AAAAATAAA-TTAATTAC
117771782 AAAAATAA
1 AAAAATAA
117771790 TAACCTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 5 0.24
17 10 0.48
18 6 0.29
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAAATAAATTAATTAC
Found at i:117772825 original size:22 final size:22
Alignment explanation
Indices: 117772800--117772902 Score: 52
Period size: 21 Copynumber: 4.7 Consensus size: 22
117772790 TAATATTTTG
117772800 ATATATGAAATATAAAATTTAA
1 ATATATGAAATATAAAATTTAA
* * * *
117772822 ATATTTCTAAGTA-ATTAATATTAA
1 ATATAT-GAAATATA-AAAT-TTAA
* *
117772846 ATATTTGTAAA-ATTAAATTTAA
1 ATATATG-AAATATAAAATTTAA
* * *
117772868 ATATAT-AAAAATTATATTTAA
1 ATATATGAAATATAAAATTTAA
*
117772889 ATA-ATAAAATATAA
1 ATATATGAAATATAA
117772903 CCATTATTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
20 5 0.08
21 19 0.31
22 15 0.24
23 11 0.18
24 12 0.19
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (22 bp):
ATATATGAAATATAAAATTTAA
Found at i:117772845 original size:24 final size:22
Alignment explanation
Indices: 117772814--117772891 Score: 79
Period size: 21 Copynumber: 3.5 Consensus size: 22
117772804 ATGAAATATA
117772814 AAATTTAAATATTTCTAAGTAATT
1 AAATTTAAATATTTCTAA--AATT
*
117772838 -AATATTAAATATTTGTAAAATT
1 AAAT-TTAAATATTTCTAAAATT
* *
117772860 AAATTTAAATATAT-AAAAATT
1 AAATTTAAATATTTCTAAAATT
*
117772881 ATATTTAAATA
1 AAATTTAAATA
117772892 ATAAAATATA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
21 16 0.33
22 13 0.27
23 6 0.12
24 13 0.27
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.44
Consensus pattern (22 bp):
AAATTTAAATATTTCTAAAATT
Found at i:117772895 original size:20 final size:21
Alignment explanation
Indices: 117772854--117772897 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
117772844 AAATATTTGT
117772854 AAAATTAAATTTAAATATATA
1 AAAATTAAATTTAAATATATA
*
117772875 AAAATTATATTTAAATA-ATA
1 AAAATTAAATTTAAATATATA
117772895 AAA
1 AAA
117772898 TATAACCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATTAAATTTAAATATATA
Found at i:117777566 original size:102 final size:99
Alignment explanation
Indices: 117777388--117777586 Score: 247
Period size: 102 Copynumber: 2.0 Consensus size: 99
117777378 TAACAACCTG
*
117777388 CAAAGATGGACGCAAGGTTTGTGCATTGACTGCAGGAGAAACAGTTCGCATGCGAGTACCTGAGC
1 CAAAGATGGACCCAAGGTTTGTGCATTGACTGCAGGAGAAACAGTTCGCATGCGAGTACCTGAGC
*
117777453 TAGTTGAAGGGAGACCAGAAGCACCGGAAGGCCA
66 CAGTTGAAGGGAGACCAGAAGCACCGGAAGGCCA
* * * * * * **
117777487 CAAAGATGGACCCATGGTTTGTGTATTGACTACAGCTGGTGAAACAGTTTGCATGCTAGTGGCTG
1 CAAAGATGGACCCAAGGTTTGTGCATTGACT---GCAGGAGAAACAGTTCGCATGCGAGTACCTG
**
117777552 -GCCCAGTTGAAGGGAGACCAGAAGCAGTGGAAGGC
63 AG-CCAGTTGAAGGGAGACCAGAAGCACCGGAAGGC
117777587 TGTTGAACCA
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
99 28 0.33
101 1 0.01
102 55 0.65
ACGTcount: A:0.29, C:0.19, G:0.33, T:0.19
Consensus pattern (99 bp):
CAAAGATGGACCCAAGGTTTGTGCATTGACTGCAGGAGAAACAGTTCGCATGCGAGTACCTGAGC
CAGTTGAAGGGAGACCAGAAGCACCGGAAGGCCA
Found at i:117786290 original size:169 final size:170
Alignment explanation
Indices: 117786011--117786353 Score: 652
Period size: 169 Copynumber: 2.0 Consensus size: 170
117786001 CACTGTCAAC
* *
117786011 AATTACCATGAAACACAATATTGACTCATCATAGAAGTAAACTTTTACACATCCTCATTCTAATG
1 AATTACCATGAAACACAATATTAACTCATCATAAAAGTAAACTTTTACACATCCTCATTCTAATG
*
117786076 CATATATCATGAGATAAAAAAATCAACTCAAATACATATACTATAATTATGATAAT-AATAAAAA
66 CATATATCATGAGATAAAAAAATCAACTCAAATACATATACTATAATTATGATAATAAAAAAAAA
117786140 GATAAAACAGGGCATTTGGAAATCCAAAATAAATAAAAGG
131 GATAAAACAGGGCATTTGGAAATCCAAAATAAATAAAAGG
117786180 AATTACCATGAAACACAATATTAACTCATCATAAAAGTAAACTTTTACACATCCTCATTCTAATG
1 AATTACCATGAAACACAATATTAACTCATCATAAAAGTAAACTTTTACACATCCTCATTCTAATG
117786245 CATATATCATGAGATAAAAAAATCAACTCAAATACATATACTATAATTATGATAATAAAAAAAAA
66 CATATATCATGAGATAAAAAAATCAACTCAAATACATATACTATAATTATGATAATAAAAAAAAA
117786310 GATAAAACAGGGCATTTGGAAATCCAAAATAAATAAAAGG
131 GATAAAACAGGGCATTTGGAAATCCAAAATAAATAAAAGG
117786350 AATT
1 AATT
117786354 CAAACAAGTG
Statistics
Matches: 170, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
169 119 0.70
170 51 0.30
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.27
Consensus pattern (170 bp):
AATTACCATGAAACACAATATTAACTCATCATAAAAGTAAACTTTTACACATCCTCATTCTAATG
CATATATCATGAGATAAAAAAATCAACTCAAATACATATACTATAATTATGATAATAAAAAAAAA
GATAAAACAGGGCATTTGGAAATCCAAAATAAATAAAAGG
Found at i:117792389 original size:61 final size:61
Alignment explanation
Indices: 117792294--117792420 Score: 254
Period size: 61 Copynumber: 2.1 Consensus size: 61
117792284 ATTTACATAT
117792294 ATCATATTTCAACACCAAATATTCCCCTTTATCTTACAAACTAAACATAGAAACAGATGCC
1 ATCATATTTCAACACCAAATATTCCCCTTTATCTTACAAACTAAACATAGAAACAGATGCC
117792355 ATCATATTTCAACACCAAATATTCCCCTTTATCTTACAAACTAAACATAGAAACAGATGCC
1 ATCATATTTCAACACCAAATATTCCCCTTTATCTTACAAACTAAACATAGAAACAGATGCC
117792416 ATCAT
1 ATCAT
117792421 TTCCCTCTTG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.41, C:0.26, G:0.05, T:0.28
Consensus pattern (61 bp):
ATCATATTTCAACACCAAATATTCCCCTTTATCTTACAAACTAAACATAGAAACAGATGCC
Found at i:117795711 original size:37 final size:37
Alignment explanation
Indices: 117795650--117795795 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
117795640 TACGTATGAT
* *
117795650 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
117795685 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
117795722 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
117795759 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
117795796 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:117795812 original size:46 final size:46
Alignment explanation
Indices: 117795759--117795961 Score: 273
Period size: 46 Copynumber: 4.3 Consensus size: 46
117795749 TAAGTGTAGC
* * **
117795759 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
117795805 CACTTATCACTTTGTCTA-TTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTC-ACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
117795851 CAATTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
117795903 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
117795949 TACTTATCACTTT
1 CACTTATCACTTT
117795962 CCACTTGTCA
Statistics
Matches: 140, Mismatches: 9, Indels: 16
0.85 0.05 0.10
Matches are distributed among these distances:
46 96 0.69
49 2 0.01
51 1 0.01
52 41 0.29
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:117795879 original size:52 final size:52
Alignment explanation
Indices: 117795802--117795981 Score: 248
Period size: 52 Copynumber: 3.6 Consensus size: 52
117795792 TAGCTAAAGC
* *
117795802 TATCACTTATCACTTTGTCTA-TTGATCAGATAAGTATAGCCGAAGCTATCAAT
1 TATCACTTTTCAC-TTGTC-ACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
117795855 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
117795907 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
117795953 TATCACTTTCCACTTGTCACTTGATCAGA
1 TATCACTTTTCACTTGTCACTTGATCAGA
117795982 AGTACTCAAA
Statistics
Matches: 114, Mismatches: 6, Indels: 15
0.84 0.04 0.11
Matches are distributed among these distances:
46 43 0.38
49 1 0.01
51 1 0.01
52 57 0.50
53 12 0.11
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:117795939 original size:98 final size:98
Alignment explanation
Indices: 117795759--117795981 Score: 358
Period size: 98 Copynumber: 2.3 Consensus size: 98
117795749 TAAGTGTAGC
* * *
117795759 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCTAT
117795824 TGATCAGATAAGTATAGCCGAAGCTATCAATTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCAATTAT
*
117795858 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTC-ACT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCTA-T
* *
117795922 TGATCAGATAAGTATAGCCGAAGCTATTACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCAATTAT
*
117795956 CACTTTCCACTTGTCACTTGATCAGA
1 CACTTTTCACTTGTCACTTGATCAGA
117795982 AGTACTCAAA
Statistics
Matches: 116, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
97 1 0.01
98 106 0.91
99 9 0.08
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCTATT
GATCAGATAAGTATAGCCGAAGCTATCAATTAT
Found at i:117798965 original size:25 final size:24
Alignment explanation
Indices: 117798934--117798999 Score: 114
Period size: 24 Copynumber: 2.7 Consensus size: 24
117798924 AAGCCCTCCC
117798934 AAAAAAAAAACCTAACCAAAAAAA
1 AAAAAAAAAACCTAACCAAAAAAA
*
117798958 AAAGAAAAAACCTAACCAAAAAAA
1 AAAAAAAAAACCTAACCAAAAAAA
117798982 AAAAAGAAAAACCTAACC
1 AAAAA-AAAAACCTAACC
117799000 CCCAAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 27 0.69
25 12 0.31
ACGTcount: A:0.74, C:0.18, G:0.03, T:0.05
Consensus pattern (24 bp):
AAAAAAAAAACCTAACCAAAAAAA
Found at i:117798970 original size:24 final size:23
Alignment explanation
Indices: 117798934--117798999 Score: 105
Period size: 25 Copynumber: 2.7 Consensus size: 23
117798924 AAGCCCTCCC
117798934 AAAAAAAAAACCTAACCAAAAAA
1 AAAAAAAAAACCTAACCAAAAAA
117798957 AAAAGAAAAAACCTAACCAAAAAAA
1 AAAA-AAAAAACCTAACC-AAAAAA
117798982 AAAAAGAAAAACCTAACC
1 AAAAA-AAAAACCTAACC
117799000 CCCAAAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
23 4 0.10
24 14 0.35
25 22 0.55
ACGTcount: A:0.74, C:0.18, G:0.03, T:0.05
Consensus pattern (23 bp):
AAAAAAAAAACCTAACCAAAAAA
Found at i:117799006 original size:24 final size:24
Alignment explanation
Indices: 117798934--117799009 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
117798924 AAGCCCTCCC
117798934 AAAAA-AAAAACCTAA-CCAAAAA
1 AAAAAGAAAAACCTAACCCAAAAA
*
117798956 AAAAAGAAAAAACCTAACCAAAAAAA
1 AAAAAG-AAAAACCTAACC-CAAAAA
**
117798982 AAAAAGAAAAACCTAACCCCCAAA
1 AAAAAGAAAAACCTAACCCAAAAA
117799006 AAAA
1 AAAA
117799010 CCAAGAAACC
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.11
24 17 0.37
25 13 0.28
26 11 0.24
ACGTcount: A:0.74, C:0.20, G:0.03, T:0.04
Consensus pattern (24 bp):
AAAAAGAAAAACCTAACCCAAAAA
Found at i:117799006 original size:25 final size:25
Alignment explanation
Indices: 117798934--117799009 Score: 95
Period size: 25 Copynumber: 3.1 Consensus size: 25
117798924 AAGCCCTCCC
117798934 AAAAA-AAAAACCTAA--CCAAAAA
1 AAAAAGAAAAACCTAACCCCAAAAA
**
117798956 AAAAAGAAAAAACCTAACCAAAAAAA
1 AAAAAG-AAAAACCTAACCCCAAAAA
*
117798982 AAAAAGAAAAACCTAACCCCCAAAA
1 AAAAAGAAAAACCTAACCCCAAAAA
117799007 AAA
1 AAA
117799010 CCAAGAAACC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.11
24 10 0.22
25 19 0.42
26 11 0.24
ACGTcount: A:0.74, C:0.20, G:0.03, T:0.04
Consensus pattern (25 bp):
AAAAAGAAAAACCTAACCCCAAAAA
Found at i:117799252 original size:15 final size:14
Alignment explanation
Indices: 117799223--117799269 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
117799213 CCTAAAGGTG
*
117799223 ATTTTATCTTCTTT
1 ATTTTATCTTTTTT
117799237 ATTTTACTCTTTTTT
1 ATTTTA-TCTTTTTT
*
117799252 ATTTT-TATTTTTT
1 ATTTTATCTTTTTT
117799265 ATTTT
1 ATTTT
117799270 TTTTCTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 12 0.40
14 6 0.20
15 12 0.40
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.77
Consensus pattern (14 bp):
ATTTTATCTTTTTT
Found at i:117799328 original size:13 final size:13
Alignment explanation
Indices: 117799310--117799361 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
117799300 TATATACATC
117799310 ATAATAAAAAAAT
1 ATAATAAAAAAAT
*
117799323 ATAATAAAAATAT
1 ATAATAAAAAAAT
*
117799336 ATATACAAAACAAAT
1 ATA-ATAAAA-AAAT
117799351 AT-ATAAAAAAA
1 ATAATAAAAAAA
117799362 ATTACCTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
12 3 0.09
13 20 0.61
14 5 0.15
15 5 0.15
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (13 bp):
ATAATAAAAAAAT
Found at i:117799363 original size:13 final size:14
Alignment explanation
Indices: 117799310--117799363 Score: 60
Period size: 15 Copynumber: 3.9 Consensus size: 14
117799300 TATATACATC
117799310 ATAATAAAAAA-AT
1 ATAATAAAAAATAT
117799323 ATAATAAAAATATAT
1 ATAATAAAAA-ATAT
117799338 ATACA-AAACAAATAT
1 ATA-ATAAA-AAATAT
117799353 ATAA-AAAAAAT
1 ATAATAAAAAAT
117799364 TACCTTTTCC
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
13 14 0.38
14 5 0.14
15 15 0.41
16 3 0.08
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (14 bp):
ATAATAAAAAATAT
Found at i:117799761 original size:11 final size:11
Alignment explanation
Indices: 117799743--117799772 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
117799733 GTGTATATTG
117799743 TATATATTATA
1 TATATATTATA
*
117799754 TTTATATTATA
1 TATATATTATA
117799765 TATATATT
1 TATATATT
117799773 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:117801854 original size:12 final size:12
Alignment explanation
Indices: 117801837--117801872 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
117801827 ATTCATTTGA
117801837 CATTCATGCATT
1 CATTCATGCATT
*
117801849 CATTCATGCATC
1 CATTCATGCATT
*
117801861 CATTCATTCATT
1 CATTCATGCATT
117801873 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:117801866 original size:16 final size:17
Alignment explanation
Indices: 117801845--117801876 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
117801835 GACATTCATG
117801845 CATTCATTCA-TGCATC
1 CATTCATTCATTGCATC
117801861 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
117801877 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTCATTCATTGCATC
Found at i:117810217 original size:74 final size:74
Alignment explanation
Indices: 117810124--117810701 Score: 740
Period size: 74 Copynumber: 7.7 Consensus size: 74
117810114 TGATGTTTTT
* * * *
117810124 ATTTCTG-TTTCAAAGAAATCAACTCATACTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGGG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
117810188 GTAATTTCA
66 GTATTTTCA
* * * *
117810197 ATTTCTGTTGTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTAAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
117810262 GTAATTTCA
66 GTATTTTCA
*
117810271 ATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCT
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCT
117810333 GAGGTATTTTCA
63 GAGGTATTTTCA
* *
117810345 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCA-GATCACACAT
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACGC--
*
117810409 TGTGGTATTTTTTCA
62 TGAGGTA--TTTTCA
* * *
117810424 ATTTTTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*
117810489 GGTAATTTCA
65 GGTATTTTCA
* ** * *
117810499 ATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
117810562 GTATTTTCA
66 GTATTTTCA
* *
117810571 ATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCT
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCT
117810635 GAGGTATTTTCA
63 GAGGTATTTTCA
*
117810647 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
117810702 ATCACACATT
Statistics
Matches: 442, Mismatches: 42, Indels: 37
0.85 0.08 0.07
Matches are distributed among these distances:
71 2 0.00
72 101 0.23
73 8 0.02
74 132 0.30
75 19 0.04
76 25 0.06
77 92 0.21
78 1 0.00
79 60 0.14
80 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (74 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
GTATTTTCA
Found at i:117810504 original size:228 final size:221
Alignment explanation
Indices: 117810124--117810696 Score: 821
Period size: 228 Copynumber: 2.6 Consensus size: 221
117810114 TGATGTTTTT
* * * * *
117810124 ATTTCTG-TTTCAAAGAAATCAACTCATACTACGAGAGGTGAGTTGAGCCTCAGGA-CACGCTGG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GATCACACTGA
* * *
117810187 GGTAATTTCAATTTCTGT-TGTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGG
65 GGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
**
117810251 GACACGCTAAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
130 GACACGCTAAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGA
* *
117810316 GCCTC-GGTTCACATGCTGAGGTATTTTCA
195 GCCTCAAG---ACACGCTGAGGTATTTTCA
*
117810345 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACATT
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACAC--T
* * *
117810410 GTGGTATTTTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCC
63 GAGGTA--TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
117810475 TCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAG
126 TCGGGACACGCTAAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAG
*
117810540 TTGAGCCTCAAGACACGTTGAGGTATTTTCA
191 TTGAGCCTCAAGACACGCTGAGGTATTTTCA
* * *
117810571 ATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA--CTG
117810636 AGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
64 AGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
117810697 TTCAGATCAC
Statistics
Matches: 316, Mismatches: 25, Indels: 20
0.88 0.07 0.06
Matches are distributed among these distances:
221 7 0.02
222 2 0.01
223 99 0.31
225 60 0.19
226 25 0.08
227 13 0.04
228 109 0.34
229 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (221 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACTGAG
GTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
ACACGCTAAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAG
CCTCAAGACACGCTGAGGTATTTTCA
Found at i:117810677 original size:302 final size:301
Alignment explanation
Indices: 117810131--117810729 Score: 1020
Period size: 302 Copynumber: 2.0 Consensus size: 301
117810121 TTTATTTCTG
* *
117810131 TTTCAAAGAAATCAACTCATACTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGGGGTAATTTC
1 TTTCAAAAAAATCAACTCATACTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
** **
117810196 AATTTCTGTTGTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTAA
66 AATTTCTGTTGTC-AAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACGCTAA
117810261 GGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTC
130 GGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTC
117810326 ACATGCTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
195 ACATGCTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
*
117810391 GAGCTTCAGATCACACATTGTGGTATTTTTTCAATTTTTGTC
260 GAGCTTCAGATCACACATTGTGATATTTTTTCAATTTTTGTC
* *
117810433 TTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTC
1 TTTCAAAAAAATCAACTCATACTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
* * * * *
117810498 AATTTCTGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
66 AATTTCTGTTGTCAAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACGCTAAG
* *
117810562 GTATTTTCAATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTT
131 GTAATTTCAATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTT
117810627 CACATGCTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
194 CACATGCTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
117810692 TGAGCTTCAGATCACACATTGTGATATTTTTTCAATTT
259 TGAGCTTCAGATCACACATTGTGATATTTTTTCAATTT
117810730 ATATTGCGAA
Statistics
Matches: 279, Mismatches: 16, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
300 63 0.23
302 216 0.77
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (301 bp):
TTTCAAAAAAATCAACTCATACTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
AATTTCTGTTGTCAAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACGCTAAG
GTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCA
CATGCTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
AGCTTCAGATCACACATTGTGATATTTTTTCAATTTTTGTC
Found at i:117810927 original size:15 final size:14
Alignment explanation
Indices: 117810891--117810923 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
117810881 CACTGAGGTA
117810891 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
117810905 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
117810919 TTTTC
1 TTTTC
117810924 CAAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:117810958 original size:94 final size:90
Alignment explanation
Indices: 117810763--117811148 Score: 345
Period size: 94 Copynumber: 4.2 Consensus size: 90
117810753 TTTTTAATTT
* * * * * * *
117810763 TTGCGAGAGGTGAGTTGAACC-T--CAAGACGCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTC
1 TTGCGAGAGGTGAGTTGAGCCTTAACCACACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTA
* *
117810825 TGTGTTTCAAAAAAATCAGCTCATA
66 TGTTTTTCAAAAAAATCAACTCATA
* * * *
117810850 TTGCGAGTGGTGAGTTGAGCCTTGACTCACACACTGAGGTATTTTCAAATTCTGTTTTTCAAATT
1 TTGCGAGAGGTGAGTTGAGCCTTAAC-CACACGCTGAGGTATTTTCAATTTCTGTTTTTC-AATT
117810915 T-TGTTTTTCCAAAAAAAAATCAACTCATA
64 TATGTTTTT-C--AAAAAAATCAACTCATA
* * ** * *
117810944 TTGCGAGAGGTGAGTTCAGCC-TCAGGACACGCTGAGGTATTTTCAATTTTTTTTTCTTTTCAAT
1 TTGCGAGAGGTGAGTTGAGCCTTAACCACACGCTGAGGTATTTTCAA--TTTCTGT-TTTTCAAT
* *
117811008 TTATGTTTGTCAAAAAATTCAACTCATA
63 TTATGTTTTTCAAAAAAATCAACTCATA
* * * * *
117811036 TTGAGAGAGGTGAGTTGAGCCTCAAGCCACACGCTGAGGTATTTTCAATTGATGTTTTTTTTTTA
1 TTGCGAGAGGTGAGTTGAGCCTTAA-CCACACGCTGAGGTATTTTCAA-T--T-TCTGTTTTTCA
* *
117811101 ATTTATGCTTTGC--AAAAATCAACTCATA
61 ATTTATGTTTTTCAAAAAAATCAACTCATA
*
117811129 TTACGAGAGGTGAGTTGAGC
1 TTGCGAGAGGTGAGTTGAGC
117811149 TTCGGGTCAC
Statistics
Matches: 247, Mismatches: 35, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
87 19 0.08
88 1 0.00
90 1 0.00
91 32 0.13
92 60 0.24
93 37 0.15
94 65 0.26
95 27 0.11
96 5 0.02
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37
Consensus pattern (90 bp):
TTGCGAGAGGTGAGTTGAGCCTTAACCACACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTA
TGTTTTTCAAAAAAATCAACTCATA
Found at i:117811044 original size:92 final size:93
Alignment explanation
Indices: 117810928--117811144 Score: 304
Period size: 92 Copynumber: 2.3 Consensus size: 93
117810918 TTTTTCCAAA
* *
117810928 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTC-AG-GACACGCTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGAGAGAGGTGAGTTCAGCCTCAAGCCACACGCTGAGGTATTTTCAAT
117810991 T-T-TTTTTTCTTTTCAATTTATG-TTTGTC
66 TATGTTTTTT-TTTT-AATTTATGCTTTG-C
*
117811019 AAAAAATTCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAAGCCACACGCTGAGGTATTTTCAA
1 AAAAAA-TCAACTCATATTGAGAGAGGTGAGTTCAGCCTCAAGCCACACGCTGAGGTATTTTCAA
117811084 TTGATGTTTTTTTTTTAATTTATGCTTTGC
65 TT-ATGTTTTTTTTTTAATTTATGCTTTGC
117811114 -AAAAATCAACTCATATT-ACGAGAGGTGAGTT
1 AAAAAATCAACTCATATTGA-GAGAGGTGAGTT
117811145 GAGCTTCGGG
Statistics
Matches: 115, Mismatches: 3, Indels: 14
0.87 0.02 0.11
Matches are distributed among these distances:
91 6 0.05
92 32 0.28
93 26 0.23
94 27 0.23
95 9 0.08
96 9 0.08
97 6 0.05
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.37
Consensus pattern (93 bp):
AAAAAATCAACTCATATTGAGAGAGGTGAGTTCAGCCTCAAGCCACACGCTGAGGTATTTTCAAT
TATGTTTTTTTTTTAATTTATGCTTTGC
Found at i:117811866 original size:24 final size:24
Alignment explanation
Indices: 117811839--117811898 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
117811829 TCCCCCCAAA
117811839 AAAAAACCTAACCAAAAAAAAAAG
1 AAAAAACCTAACCAAAAAAAAAAG
*
117811863 AAAAAACCTAACCCAAAAAAAAAG
1 AAAAAACCTAACCAAAAAAAAAAG
117811887 -AAAAACCTAACC
1 AAAAAACCTAACC
117811899 CCCCCCAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 12 0.34
24 23 0.66
ACGTcount: A:0.70, C:0.22, G:0.03, T:0.05
Consensus pattern (24 bp):
AAAAAACCTAACCAAAAAAAAAAG
Done.