Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 43 of 141
Found at i:13528573 original size:18 final size:18
Alignment explanation
Indices: 13528546--13528585 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13528536 CAGGTGCGTA
* *
13528546 TCCTAGCCCTTTTATGTG
1 TCCTAACCCTTATATGTG
*
13528564 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTG
13528582 TCCT
1 TCCT
13528586 TTTTCTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.30, G:0.10, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTG
Found at i:13532375 original size:125 final size:125
Alignment explanation
Indices: 13532150--13532439 Score: 465
Period size: 125 Copynumber: 2.3 Consensus size: 125
13532140 CAGGCCATGC
13532150 GCCACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAATACTTCTGCTGACAAAGCATCCT
1 GCCACTGTAGCAAAAGCGCGTCCACGT-GGAGCTTCTTTCAATACTTCTGCTGACAAAGCATCCT
* *
13532215 GCTTAAAGCGTTTTTGACACTGTTTACTCAGAAACGTCTACTCGAAATT-TTTTTTCAGGA
65 GCTTAAAGCGTTTCTGACACTGTTTACTCAGAAACGTCTACTCGAAATTATTTTCTCAGGA
* * * * *
13532275 GCTACTGTAGCAAAAGCGTGTCCACGTGGAAGCTTTTTTTAGTACTTCTGCTGACAAAGCATCCT
1 GCCACTGTAGCAAAAGCGCGTCCACGTGG-AGCTTCTTTCAATACTTCTGCTGACAAAGCATCCT
* *
13532340 GCTTAAAGCGTTTCTGATACTGTTTACTCAGAAACGTCTACTCGACATTATTTTCTCAGGA
65 GCTTAAAGCGTTTCTGACACTGTTTACTCAGAAACGTCTACTCGAAATTATTTTCTCAGGA
13532401 GCCACTGTAGCAAAAGCGCGTCCACGTAGGAGCTTCTTT
1 GCCACTGTAGCAAAAGCGCGTCCACGT-GGAGCTTCTTT
13532440 AAATTAACAA
Statistics
Matches: 150, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
124 2 0.01
125 103 0.69
126 43 0.29
127 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (125 bp):
GCCACTGTAGCAAAAGCGCGTCCACGTGGAGCTTCTTTCAATACTTCTGCTGACAAAGCATCCTG
CTTAAAGCGTTTCTGACACTGTTTACTCAGAAACGTCTACTCGAAATTATTTTCTCAGGA
Found at i:13534046 original size:21 final size:22
Alignment explanation
Indices: 13534002--13534049 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
13533992 ACAAATAAAA
* *
13534002 TTTTAAAATAAAATGTTTAGAT
1 TTTTAAAATAAAATATATAGAT
*
13534024 TTTTAAAA-AAAATATATATAT
1 TTTTAAAATAAAATATATAGAT
13534045 TTTTA
1 TTTTA
13534050 TTTTTGGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (22 bp):
TTTTAAAATAAAATATATAGAT
Found at i:13534382 original size:26 final size:25
Alignment explanation
Indices: 13534313--13534382 Score: 63
Period size: 26 Copynumber: 2.8 Consensus size: 25
13534303 GCAGTTATAA
*
13534313 TAAATATTT-TTA-TTATGTTATTTT
1 TAAA-ATTTATTATTTATTTTATTTT
*
13534337 TAAAATTTATTATTACATTTTATTTT
1 TAAAATTTATTATT-TATTTTATTTT
* *
13534363 TATTATTTTATTATTTATTT
1 TA-AAATTTATTATTTATTT
13534383 CTTATAACGT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
23 4 0.11
24 7 0.19
25 1 0.03
26 15 0.41
27 10 0.27
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (25 bp):
TAAAATTTATTATTTATTTTATTTT
Found at i:13540452 original size:2 final size:2
Alignment explanation
Indices: 13540445--13540469 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13540435 TAATCACAAA
13540445 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13540470 ATCAAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13546494 original size:15 final size:15
Alignment explanation
Indices: 13546475--13546503 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13546465 ATGAGTCTTT
13546475 TTTTTTAATA-TTTA
1 TTTTTTAATAGTTTA
13546489 TTTTTTAATAGTTTA
1 TTTTTTAATAGTTTA
13546504 CTATACCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTTTTAATAGTTTA
Found at i:13548306 original size:31 final size:30
Alignment explanation
Indices: 13548238--13548312 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
13548228 TAACAGCACA
* *
13548238 ATAAAATTAATTTACTCTTTAAACTAACAT
1 ATAAAATTAATTTACTCTTTAAACAAAAAT
*
13548268 ATAAAAATTAATTTATCTATTTTAAA-AAAAAT
1 AT-AAAATTAATTTA-CT-CTTTAAACAAAAAT
13548300 ATAAAATCTAATT
1 ATAAAAT-TAATT
13548313 CTCATACTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
30 2 0.05
31 17 0.45
32 13 0.34
33 6 0.16
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (30 bp):
ATAAAATTAATTTACTCTTTAAACAAAAAT
Found at i:13560359 original size:10 final size:10
Alignment explanation
Indices: 13560344--13560403 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
13560334 TTTATATATT
13560344 TAAAAAATTC
1 TAAAAAATTC
*
13560354 TAAAAATTTC
1 TAAAAAATTC
*
13560364 AAAAAAATTC
1 TAAAAAATTC
*
13560374 TAAAAAATATA
1 TAAAAAAT-TC
*
13560385 TAAAGAAAGT-
1 TAAA-AAATTC
13560395 TAAAAAATT
1 TAAAAAATT
13560404 TAATAAAAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
9 4 0.10
10 28 0.68
11 6 0.15
12 3 0.07
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.28
Consensus pattern (10 bp):
TAAAAAATTC
Found at i:13561674 original size:30 final size:30
Alignment explanation
Indices: 13561638--13561709 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
13561628 TCGAAAAAGT
*
13561638 TCGGTTAACCGACCGAATTCGGTTAATCGG
1 TCGGTTAACCGACCGAATTCAGTTAATCGG
13561668 TCGGTTAACCGACCGAATTCAGTTAATCGG
1 TCGGTTAACCGACCGAATTCAGTTAATCGG
13561698 TCGGTTAACCGA
1 TCGGTTAACCGA
13561710 ATTTTTTAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (30 bp):
TCGGTTAACCGACCGAATTCAGTTAATCGG
Found at i:13562012 original size:9 final size:9
Alignment explanation
Indices: 13562000--13562085 Score: 57
Period size: 9 Copynumber: 9.4 Consensus size: 9
13561990 AAAAATAAAA
13562000 AATTCGGGT
1 AATTCGGGT
* *
13562009 AATTCAGAT
1 AATTCGGGT
*
13562018 AATTTTCAG-T
1 AA--TTCGGGT
*
13562028 AATTCGGTT
1 AATTCGGGT
**
13562037 AATTCGATT
1 AATTCGGGT
**
13562046 AATTCGATT
1 AATTCGGGT
13562055 AATTCGGGT
1 AATTCGGGT
*
13562064 AATTCAGGT
1 AATTCGGGT
*
13562073 AATTCAGGT
1 AATTCGGGT
13562082 AATT
1 AATT
13562086 TTTAACCAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
8 4 0.06
9 55 0.82
10 3 0.04
11 5 0.07
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (9 bp):
AATTCGGGT
Found at i:13562075 original size:27 final size:26
Alignment explanation
Indices: 13562000--13562085 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
13561990 AAAAATAAAA
13562000 AATTCGGGTAATTCAGATAATTTTCAGT
1 AATTCGGGTAATTCAGATAA--TTCAGT
* *
13562028 AATTCGGTTAATTC-GATTAATTCGATT
1 AATTCGGGTAATTCAGA-TAATTC-AGT
*
13562055 AATTCGGGTAATTCAGGTAATTCAGGT
1 AATTCGGGTAATTCAGATAATTCA-GT
13562082 AATT
1 AATT
13562086 TTTAACCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
26 4 0.08
27 28 0.57
28 17 0.35
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (26 bp):
AATTCGGGTAATTCAGATAATTCAGT
Found at i:13562146 original size:13 final size:13
Alignment explanation
Indices: 13562128--13562161 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
13562118 GTTAATTCGG
13562128 TTAACCGACCTTA
1 TTAACCGACCTTA
13562141 TTAACCGACCTTA
1 TTAACCGACCTTA
13562154 TTAACCGA
1 TTAACCGA
13562162 AAAAATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.32, C:0.29, G:0.09, T:0.29
Consensus pattern (13 bp):
TTAACCGACCTTA
Found at i:13562417 original size:21 final size:21
Alignment explanation
Indices: 13562392--13562436 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
13562382 TGGGGAGAAA
* *
13562392 GAGGGAAGGAGTAAAAGT-TTT
1 GAGGGAA-AAGTAAAAATGTTT
13562413 GAGGGAAAAGTAAAAATGTTT
1 GAGGGAAAAGTAAAAATGTTT
13562434 GAG
1 GAG
13562437 AGTTTAGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.42, C:0.00, G:0.36, T:0.22
Consensus pattern (21 bp):
GAGGGAAAAGTAAAAATGTTT
Found at i:13562486 original size:9 final size:9
Alignment explanation
Indices: 13562472--13562517 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
13562462 TATAGTTTGA
13562472 TATTCGAAT
1 TATTCGAAT
*
13562481 TATTCGAGT
1 TATTCGAAT
13562490 TATTCGAAT
1 TATTCGAAT
*
13562499 TATTCGAGT
1 TATTCGAAT
13562508 TATTCGAAT
1 TATTCGAAT
13562517 T
1 T
13562518 TGAAAACTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:13562495 original size:18 final size:18
Alignment explanation
Indices: 13562472--13562517 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
13562462 TATAGTTTGA
13562472 TATTCGAATTATTCGAGT
1 TATTCGAATTATTCGAGT
13562490 TATTCGAATTATTCGAGT
1 TATTCGAATTATTCGAGT
13562508 TATTCGAATT
1 TATTCGAATT
13562518 TGAAAACTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (18 bp):
TATTCGAATTATTCGAGT
Found at i:13562587 original size:9 final size:9
Alignment explanation
Indices: 13562570--13562600 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
13562560 TCGAGTTGAT
13562570 TCGAATAAC
1 TCGAATAAC
*
13562579 TCGATTAAC
1 TCGAATAAC
13562588 TCGAATAAC
1 TCGAATAAC
13562597 TCGA
1 TCGA
13562601 TTCCTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:13563084 original size:13 final size:13
Alignment explanation
Indices: 13563066--13563116 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
13563056 AAAGGGACTA
13563066 AATTTTTATTTTC
1 AATTTTTATTTTC
* * *
13563079 AATTTTTAATGTG
1 AATTTTTATTTTC
13563092 AATTTTTATTTTC
1 AATTTTTATTTTC
*
13563105 AACTTTTGATTT
1 AA-TTTTTATTT
13563117 ATTGCAGGCA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 22 0.73
14 8 0.27
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.63
Consensus pattern (13 bp):
AATTTTTATTTTC
Found at i:13566558 original size:49 final size:49
Alignment explanation
Indices: 13566501--13566595 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
13566491 GTGATTATCG
*
13566501 AGAAAGTTACTTTACAACGTCAGATATATATGTATTGATTAAAATCTCA
1 AGAAAGTTACTTTACAACGTCAGATATATATATATTGATTAAAATCTCA
* ** *
13566550 AGAAAGTTATTTTACAACGTTTGGTATATATATATTGATTAAAATC
1 AGAAAGTTACTTTACAACGTCAGATATATATATATTGATTAAAATC
13566596 CTAGGAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (49 bp):
AGAAAGTTACTTTACAACGTCAGATATATATATATTGATTAAAATCTCA
Found at i:13566620 original size:49 final size:49
Alignment explanation
Indices: 13566501--13566608 Score: 128
Period size: 49 Copynumber: 2.2 Consensus size: 49
13566491 GTGATTATCG
* * ** * *
13566501 AGAAAGTTACTTTACAACGTCAGATATATATGTATTGATTAAAATCTCA
1 AGAAAATTATTTTACAACGTTTGGTATATATATATTGATTAAAATCTCA
*
13566550 AGAAAGTTATTTTACAACGTTTGGTATATATATATTGATTAAAATC-CTA
1 AGAAAATTATTTTACAACGTTTGGTATATATATATTGATTAAAATCTC-A
*
13566599 GGAAAATTAT
1 AGAAAATTAT
13566609 ATTGTCGCGT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 1 0.02
49 50 0.98
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (49 bp):
AGAAAATTATTTTACAACGTTTGGTATATATATATTGATTAAAATCTCA
Found at i:13566828 original size:22 final size:22
Alignment explanation
Indices: 13566781--13566822 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13566771 TAGCGAACAA
13566781 AAATATATAAATATAAATAAAC
1 AAATATATAAATATAAATAAAC
* *
13566803 AAATATTTATATAT-AATAAA
1 AAATATATAAATATAAATAAA
13566823 ATAAATTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATATATAAATATAAATAAAC
Found at i:13572794 original size:3 final size:3
Alignment explanation
Indices: 13572780--13572897 Score: 65
Period size: 3 Copynumber: 40.3 Consensus size: 3
13572770 AGCATTACAA
13572780 AAT AAT ACAT AAT AA- AAT AA- AAT AAT -AT AA- AAT AA- AAGT AAAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T -AAT
* * * *
13572823 AAAT AGAT -AT AA- ACT AAT -AT GAT AAT AAT ACCT -AT ACT AAT AAT
1 -AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* *
13572867 AGT AAT AAT AAC AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
13572898 GTATTATAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 28
0.70 0.09 0.22
Matches are distributed among these distances:
2 16 0.18
3 61 0.68
4 11 0.12
5 2 0.02
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:13572803 original size:20 final size:21
Alignment explanation
Indices: 13572731--13572821 Score: 78
Period size: 20 Copynumber: 4.2 Consensus size: 21
13572721 AAAGAATATT
*
13572731 TAAAATAATGCATAATAAAA-
1 TAAAATAATACATAATAAAAG
* *
13572751 TAGAATAATACATGATAAAAG
1 TAAAATAATACATAATAAAAG
13572772 CATTACAAAATAATACATAATAAAA-
1 ---T--AAAATAATACATAATAAAAG
* *
13572797 TAAAATAATATAAAATAAAAG
1 TAAAATAATACATAATAAAAG
13572818 TAAA
1 TAAA
13572822 TAAATAGATA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
20 34 0.60
21 4 0.07
22 1 0.02
24 1 0.02
26 17 0.30
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.24
Consensus pattern (21 bp):
TAAAATAATACATAATAAAAG
Found at i:13573553 original size:13 final size:13
Alignment explanation
Indices: 13573535--13573570 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
13573525 ACAAACACAG
13573535 AAAAGAAAACGAA
1 AAAAGAAAACGAA
* *
13573548 AAAAGAAAAGGGA
1 AAAAGAAAACGAA
13573561 AAAAGAAAAC
1 AAAAGAAAAC
13573571 AGAAGAAGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.75, C:0.06, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAAGAAAACGAA
Found at i:13573583 original size:20 final size:18
Alignment explanation
Indices: 13573531--13573586 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
13573521 TCAAACAAAC
*
13573531 ACAGAAAAGAAAACGAAA
1 ACAGAAAAGAAAAAGAAA
*
13573549 AAAGAAAAGGGAAAAAGAAA
1 ACAGAAAA--GAAAAAGAAA
*
13573569 ACAGAAGAAGCAAAAGAA
1 ACAGAA-AAGAAAAAGAA
13573587 CGATCCAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
18 7 0.23
19 8 0.26
20 14 0.45
21 2 0.06
ACGTcount: A:0.71, C:0.07, G:0.21, T:0.00
Consensus pattern (18 bp):
ACAGAAAAGAAAAAGAAA
Found at i:13576755 original size:50 final size:50
Alignment explanation
Indices: 13576684--13576828 Score: 166
Period size: 50 Copynumber: 2.9 Consensus size: 50
13576674 TATTAAGATT
* * * *
13576684 ATGAGAGGTCCCATATAAGACCATGTTTGGGACATGGCGTTGGCACTGAG
1 ATGAGAGGTCCCATGTAAGACCATATTTGGGACATGGCATTGGCACCGAG
** * *
13576734 ATGAGAGGTCCCCCGTAAGACCATATCTT-GGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATAT-TTGGGACATGGCATTGGCACCGAG
** * *
13576784 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 ATGAGAGGTCCCATGTAAGACCATATTTGGGACATGGCATTGGCA
13576829 GTAAAGGAAA
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
49 1 0.01
50 75 0.96
51 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATATTTGGGACATGGCATTGGCACCGAG
Found at i:13585086 original size:15 final size:15
Alignment explanation
Indices: 13585066--13585095 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13585056 CAAAATTACC
13585066 AACATATTGGCCTTA
1 AACATATTGGCCTTA
13585081 AACATATTGGCCTTA
1 AACATATTGGCCTTA
13585096 GAGGAATGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (15 bp):
AACATATTGGCCTTA
Found at i:13585106 original size:50 final size:47
Alignment explanation
Indices: 13585031--13585127 Score: 131
Period size: 50 Copynumber: 2.0 Consensus size: 47
13585021 GGACAAAACC
* * *
13585031 AACATGTTGGCCTTAGCGGAGTGGACAAAATTACCAACATATTGGCCTTA
1 AACATATTGGCCTTAGAGGAATGGAC-AAA--ACCAACATATTGGCCTTA
*
13585081 AACATATTGGCCTTAGAGGAATGGACAAAACCAACATGTTGGCCTTA
1 AACATATTGGCCTTAGAGGAATGGACAAAACCAACATATTGGCCTTA
13585128 GCGGAATGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
47 17 0.40
49 3 0.07
50 23 0.53
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (47 bp):
AACATATTGGCCTTAGAGGAATGGACAAAACCAACATATTGGCCTTA
Found at i:13585117 original size:32 final size:32
Alignment explanation
Indices: 13585081--13585285 Score: 284
Period size: 32 Copynumber: 6.4 Consensus size: 32
13585071 ATTGGCCTTA
13585081 AACATATTGGCCTTAGAGGAATGGACAAAACC
1 AACATATTGGCCTTAGAGGAATGGACAAAACC
* * * *
13585113 AACATGTTGGCCTTAGCGGAATGAACAAAATC
1 AACATATTGGCCTTAGAGGAATGGACAAAACC
* * * *
13585145 GACATATTGACCTCAGTGGAATGGACAAAACC
1 AACATATTGGCCTTAGAGGAATGGACAAAACC
13585177 AACATATTGGCCTTAGAGGAATGGACAAAACC
1 AACATATTGGCCTTAGAGGAATGGACAAAACC
* *
13585209 AACATATTGGCCTTAGAGGAATGGAGAAAATC
1 AACATATTGGCCTTAGAGGAATGGACAAAACC
* * * *
13585241 AACATATTGACCTTAGCGGAATGAACAAAATC
1 AACATATTGGCCTTAGAGGAATGGACAAAACC
13585273 AACATATTGGCCT
1 AACATATTGGCCT
13585286 CAACTAACTC
Statistics
Matches: 151, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 151 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (32 bp):
AACATATTGGCCTTAGAGGAATGGACAAAACC
Found at i:13585246 original size:96 final size:96
Alignment explanation
Indices: 13585081--13585285 Score: 329
Period size: 96 Copynumber: 2.1 Consensus size: 96
13585071 ATTGGCCTTA
* * *
13585081 AACATATTGGCCTTAGAGGAATGGACAAAACCAACATGTTGGCCTTAGCGGAATGAACAAAATCG
1 AACATATTGGCCTTAGAGGAATGGACAAAACCAACATATTGGCCTTAGAGGAATGAACAAAATCA
* *
13585146 ACATATTGACCTCAGTGGAATGGACAAAACC
66 ACATATTGACCTCAGCGGAATGAACAAAACC
* *
13585177 AACATATTGGCCTTAGAGGAATGGACAAAACCAACATATTGGCCTTAGAGGAATGGAGAAAATCA
1 AACATATTGGCCTTAGAGGAATGGACAAAACCAACATATTGGCCTTAGAGGAATGAACAAAATCA
* *
13585242 ACATATTGACCTTAGCGGAATGAACAAAATC
66 ACATATTGACCTCAGCGGAATGAACAAAACC
13585273 AACATATTGGCCT
1 AACATATTGGCCT
13585286 CAACTAACTC
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 100 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (96 bp):
AACATATTGGCCTTAGAGGAATGGACAAAACCAACATATTGGCCTTAGAGGAATGAACAAAATCA
ACATATTGACCTCAGCGGAATGAACAAAACC
Found at i:13590140 original size:2 final size:2
Alignment explanation
Indices: 13590133--13590159 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13590123 AGTGTTTTAT
13590133 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
13590160 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:13591268 original size:71 final size:70
Alignment explanation
Indices: 13591153--13591286 Score: 250
Period size: 71 Copynumber: 1.9 Consensus size: 70
13591143 GAGCCACTGT
*
13591153 TTTTTTCTTGTTTTTTCAATCAATTCAATAAGAGTGCTTCTTCTTCACATCTACTGTTGGTTTCT
1 TTTTTTCTTATTTTTTCAATCAATTCAATAAGAGTGCTTCTTCTTCACATCTACTGTTGGTTTCT
13591218 CACTA
66 CACTA
13591223 TTTTTTCATTATTTTTTCAATCAATTCAATAAGAGTGCTTCTTCTTCACATCTACTGTTGGTTT
1 TTTTTTC-TTATTTTTTCAATCAATTCAATAAGAGTGCTTCTTCTTCACATCTACTGTTGGTTT
13591287 TTCTTATCTT
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
70 7 0.11
71 55 0.89
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.51
Consensus pattern (70 bp):
TTTTTTCTTATTTTTTCAATCAATTCAATAAGAGTGCTTCTTCTTCACATCTACTGTTGGTTTCT
CACTA
Found at i:13592298 original size:14 final size:14
Alignment explanation
Indices: 13592279--13592310 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
13592269 GGCCATGTGA
13592279 AAGCAGATTGTTGG
1 AAGCAGATTGTTGG
13592293 AAGCAGATTGTTGG
1 AAGCAGATTGTTGG
13592307 AAGC
1 AAGC
13592311 TCAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.25
Consensus pattern (14 bp):
AAGCAGATTGTTGG
Found at i:13597417 original size:10 final size:10
Alignment explanation
Indices: 13597402--13597426 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13597392 CCTCATGGGG
13597402 TTTTTTTAAA
1 TTTTTTTAAA
13597412 TTTTTTTAAA
1 TTTTTTTAAA
13597422 TTTTT
1 TTTTT
13597427 ATGAACTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:13598824 original size:161 final size:162
Alignment explanation
Indices: 13598548--13598870 Score: 630
Period size: 161 Copynumber: 2.0 Consensus size: 162
13598538 GATTTGAAAT
13598548 GAAATATATGCTAATAATTAAAGAGGTTTACATTATAGATCAAGAATCCGTAGATATTCGAAGAA
1 GAAATATATGCTAATAATTAAAGAGGTTTACATTATAGATCAAGAATCCGTAGATATTCGAAGAA
13598613 AAGACAAAATAGCATAATAATATTTGAACTTCTACAATTTCTAAGATTCATACTATTTCTGTAAC
66 AAGACAAAATAGCATAATAATATTTGAACTTCTACAATTTCTAAGATTCATACTATTTCTGTAAC
13598678 ACCCCTTACCCATATTTGTCACCGAATTAGGG
131 ACCCCTTACCCATATTTGTCACCGAATTAGGG
13598710 GAAATATATG-TAATAATTAAAGAGGTTTACATTATAGATCAAGAATCCGTAGATATTCGAAGAA
1 GAAATATATGCTAATAATTAAAGAGGTTTACATTATAGATCAAGAATCCGTAGATATTCGAAGAA
*
13598774 AAGACAAAATAGCATAATAATATTTGGACTTCTACAATTTCTAAGATTCATACTATTTCTGTAAC
66 AAGACAAAATAGCATAATAATATTTGAACTTCTACAATTTCTAAGATTCATACTATTTCTGTAAC
13598839 ACCCCTTACCCATATTTGTCACCGAATTAGGG
131 ACCCCTTACCCATATTTGTCACCGAATTAGGG
13598871 TTACGAGGCA
Statistics
Matches: 160, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
161 150 0.94
162 10 0.06
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (162 bp):
GAAATATATGCTAATAATTAAAGAGGTTTACATTATAGATCAAGAATCCGTAGATATTCGAAGAA
AAGACAAAATAGCATAATAATATTTGAACTTCTACAATTTCTAAGATTCATACTATTTCTGTAAC
ACCCCTTACCCATATTTGTCACCGAATTAGGG
Found at i:13600081 original size:18 final size:18
Alignment explanation
Indices: 13600060--13600095 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
13600050 CAAGCCTAGT
13600060 ACCAAAC-TAAAGCCCAAA
1 ACCAAACTTAAA-CCCAAA
13600078 ACCAAACTTAAACCCAAA
1 ACCAAACTTAAACCCAAA
13600096 CCTACCCCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.56, C:0.33, G:0.03, T:0.08
Consensus pattern (18 bp):
ACCAAACTTAAACCCAAA
Found at i:13607113 original size:15 final size:14
Alignment explanation
Indices: 13607095--13607124 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13607085 AATTCAATAC
13607095 ATATATA-TTAAAT
1 ATATATATTTAAAT
13607108 ATATATATTTAAAT
1 ATATATATTTAAAT
13607122 ATA
1 ATA
13607125 ATAAGCTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATATTTAAAT
Found at i:13610674 original size:39 final size:39
Alignment explanation
Indices: 13610631--13610927 Score: 328
Period size: 39 Copynumber: 7.6 Consensus size: 39
13610621 AAATAGAAAT
* *
13610631 CCGATGATTATTCGGGCTATGTACCTAGTAGGCTTTGTG
1 CCGATGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTG
* * *
13610670 CCGATGATTATTCGGGCTATGTGCCTAGTAGGCTTTTTA
1 CCGATGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTG
* * *
13610709 CCGGTGATTATTCGGGTTATGTGCCTAGCAGGCTTTGTA
1 CCGATGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTG
* * * * *
13610748 CCGGTGATTATTCTGGTTATGTGTCTAGCAGGCTGTGTG
1 CCGATGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTG
* * * * *
13610787 TCGATGATTATTTGAGCTATGTGTCTAGTAGGCTTTGTG
1 CCGATGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTG
* * * *
13610826 CC-AGTAATTATTCGAGCTATGTGCCTAACAAGCTTTGTG
1 CCGA-TGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTG
* * *
13610865 CCGATGATTATTTGGGCTATGTGCCTAGCAGACTGTGTG
1 CCGATGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTG
*
13610904 CC-AGTGATTATTCGGGCTTTGTGC
1 CCGA-TGATTATTCGGGCTATGTGC
13610928 TTACCAGGTT
Statistics
Matches: 220, Mismatches: 35, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
38 2 0.01
39 217 0.99
40 1 0.00
ACGTcount: A:0.18, C:0.17, G:0.28, T:0.37
Consensus pattern (39 bp):
CCGATGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTG
Found at i:13610941 original size:39 final size:39
Alignment explanation
Indices: 13610822--13610943 Score: 113
Period size: 39 Copynumber: 3.1 Consensus size: 39
13610812 TAGTAGGCTT
* * * * *
13610822 TGTGCCAGTAATTATTCGAGCTATGTGCCTAACAAGCTT-
1 TGTGCCAGTGATTATTCGGGCTATGTG-CTTACCAGATTG
* * * *
13610861 TGTGCC-GATGATTATTTGGGCTATGTGCCTAGCAGACTG
1 TGTGCCAG-TGATTATTCGGGCTATGTGCTTACCAGATTG
* *
13610900 TGTGCCAGTGATTATTCGGGCTTTGTGCTTACCAGGTTG
1 TGTGCCAGTGATTATTCGGGCTATGTGCTTACCAGATTG
13610939 TGTGC
1 TGTGC
13610944 TGGTGTATTG
Statistics
Matches: 65, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
38 6 0.09
39 58 0.89
40 1 0.02
ACGTcount: A:0.18, C:0.19, G:0.28, T:0.35
Consensus pattern (39 bp):
TGTGCCAGTGATTATTCGGGCTATGTGCTTACCAGATTG
Found at i:13622432 original size:13 final size:13
Alignment explanation
Indices: 13622409--13622442 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
13622399 CTACTTTTTA
13622409 TTATT-TTTTATT
1 TTATTATTTTATT
13622421 TTATTATTTTATT
1 TTATTATTTTATT
13622434 TTATTATTT
1 TTATTATTT
13622443 CAAGCACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTATTATTTTATT
Found at i:13622442 original size:8 final size:8
Alignment explanation
Indices: 13622404--13622433 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
13622394 TTTGCCTACT
13622404 TTTTATTA
1 TTTTATTA
13622412 TTTT-TTA
1 TTTTATTA
13622419 TTTTATTA
1 TTTTATTA
13622427 TTTTATT
1 TTTTATT
13622434 TTATTATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTATTA
Found at i:13627162 original size:44 final size:44
Alignment explanation
Indices: 13627112--13627372 Score: 181
Period size: 44 Copynumber: 5.7 Consensus size: 44
13627102 CCATAAATTT
*
13627112 TATACCCCTAAAGTTACAGTAGAGCAGATTGAAGCTACAAATCC
1 TATACCCCTGAAGTTACAGTAGAGCAGATTGAAGCTACAAATCC
* * ** **
13627156 TATACCCCTGAAGTTGCAGT-GGGTCAGATTGAATTTACTATAATGAA
1 TATACCCCTGAAGTTACAGTAGAG-CAGATTGAAGCTAC-A-AAT-CC
* *
13627203 TATTATCTCCCTGAAGTTATAGTAGAGCAGATTGAAGCTACAAATCT
1 TA-TA-C-CCCTGAAGTTACAGTAGAGCAGATTGAAGCTACAAATCC
* ** * *
13627250 TATACCCCTAAAGTTGTAGT-GGGTC-GAATTGAATCTACCATAGTGAATCC
1 TATACCCCTGAAGTTACAGTAGAG-CAG-ATTGAAGCTA-C--A---AATCC
* *
13627300 TAT-CTCCCTGAAGTTGCA-TAGAGCAAATTGAAGCTACAAATCC
1 TATAC-CCCTGAAGTTACAGTAGAGCAGATTGAAGCTACAAATCC
* *
13627343 TATACCCCTGAAGTTACAGTGGATCAGATT
1 TATACCCCTGAAGTTACAGTAGAGCAGATT
13627373 AAATTTACCA
Statistics
Matches: 168, Mismatches: 28, Indels: 42
0.71 0.12 0.18
Matches are distributed among these distances:
43 25 0.15
44 62 0.37
45 3 0.02
46 6 0.04
47 5 0.03
48 6 0.04
49 14 0.08
50 45 0.27
51 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (44 bp):
TATACCCCTGAAGTTACAGTAGAGCAGATTGAAGCTACAAATCC
Found at i:13627364 original size:93 final size:94
Alignment explanation
Indices: 13627117--13627425 Score: 406
Period size: 94 Copynumber: 3.3 Consensus size: 94
13627107 AATTTTATAC
13627117 CCCTAAAGTTACAGTAGAGCAGATTGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCA
1 CCCTAAAGTTACAGTAGAGCAGATTGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCA
* *
13627182 GATTGAATTTACTATAATGAATATTATCT
66 GATTGAATTTACCATAATGAATCTTATCT
* * * * *
13627211 CCCTGAAGTTATAGTAGAGCAGATTGAAGCTACAAATCTTATACCCCTAAAGTTGTAGTGGGTC-
1 CCCTAAAGTTACAGTAGAGCAGATTGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCA
* * *
13627275 GAATTGAATCTACCATAGTGAATCCTATCT
66 G-ATTGAATTTACCATAATGAATCTTATCT
* * * * *
13627305 CCCTGAAGTTGCA-TAGAGCAAATTGAAGCTACAAATCCTATACCCCTGAAGTTACAGTGGATCA
1 CCCTAAAGTTACAGTAGAGCAGATTGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCA
* *
13627369 GATTAAATTTACCATAACGAATCTTATCT
66 GATTGAATTTACCATAATGAATCTTATCT
* * * *
13627398 CTCTAAAGTTGCAATAGAACAGATTGAA
1 CCCTAAAGTTACAGTAGAGCAGATTGAA
13627426 ATAGTTATAG
Statistics
Matches: 185, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
93 79 0.43
94 106 0.57
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (94 bp):
CCCTAAAGTTACAGTAGAGCAGATTGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCA
GATTGAATTTACCATAATGAATCTTATCT
Found at i:13627957 original size:50 final size:49
Alignment explanation
Indices: 13627903--13628049 Score: 135
Period size: 50 Copynumber: 3.1 Consensus size: 49
13627893 TTAAAGTTGC
13627903 AGTGGATCGGATTGAATCTACTATAACGAATCTTATCTCCCTGAAGTTAT
1 AGTGGATCGGATTGAATCTAC-ATAACGAATCTTATCTCCCTGAAGTTAT
* * * * * * **
13627953 AGTGGAGCAGATTAAAGCTAC---A--AATCCTATAC-CTCTGAAGTTGC
1 AGTGGATCGGATTGAATCTACATAACGAATCTTAT-CTCCCTGAAGTTAT
* *
13627997 AGTGGGTTGGATTGAATCTAGCATAACGAATCTTATCTCCCTGAAGTTAT
1 AGTGGATCGGATTGAATCTA-CATAACGAATCTTATCTCCCTGAAGTTAT
13628047 AGT
1 AGT
13628050 AGAGCAGATT
Statistics
Matches: 71, Mismatches: 18, Indels: 16
0.68 0.17 0.15
Matches are distributed among these distances:
44 30 0.42
45 2 0.03
46 1 0.01
48 1 0.01
49 1 0.01
50 36 0.51
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (49 bp):
AGTGGATCGGATTGAATCTACATAACGAATCTTATCTCCCTGAAGTTAT
Found at i:13628183 original size:94 final size:94
Alignment explanation
Indices: 13627434--13628170 Score: 678
Period size: 94 Copynumber: 7.9 Consensus size: 94
13627424 AAATAGTTAT
* * * * * * * *
13627434 AGTGGATCGGATTAAATTTACCATAACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAA
1 AGTGGGTCGGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
*
13627499 AGCTACAAATCTTATACCCCTAAAGTTAC
66 AGCTACAAATCTTATACCCCTAAAGTTGC
* * * *
13627528 AGTGGTTTGGATT-AAGTTTACCATAGCGAATCTTATCTCCCTAAAGTTGAAGTGGAGCAGATTG
1 AGTGGGTCGGATTGAAG-TTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG
* * * ** *
13627592 AAACTACGAATCTTATAGCTTTGAAGTTGC
65 AAGCTACAAATCTTATACCCCTAAAGTTGC
** * * ** * *
13627622 AGTGGGTCAAATTGAAGTTATCATAGCTAATCTTATCTCTTTGAAGTTGCAGTGGAGTATATT-A
1 AGTGGGTCGGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
* * * *
13627686 ATGATACAAATCCTGTACCCCTAAAGATGC
66 A-GCTACAAATCTTATACCCCTAAAGTTGC
* * * * ** * ** *
13627716 AGTGGGTCAGATT-AAATCTATCATAGCGAACCTTATCTATCTGAAATTATAGTAGAGCAGATTG
1 AGTGGGTCGGATTGAAGT-TACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG
* * * *
13627780 AAGCTAAAAATCCTATACCCTTGAAGTTGC
65 AAGCTACAAATCTTATACCCCTAAAGTTGC
* * * * * *
13627810 AGTGGGTTGGATTAAAGTTACCATAGTGAATCTTATCTCCCTAAAGTTGCAGTGAAACAGA-TGA
1 AGTGGGTCGGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
*
13627874 AGCTACAAATCTTATACCCTTAAAGTTGC
66 AGCTACAAATCTTATACCCCTAAAGTTGC
* * * ** *
13627903 AGTGGATCGGATTGAA-TCTACTATAACGAATCTTATCTCCCTGAAGTTATAGTGGAGCAGATTA
1 AGTGGGTCGGATTGAAGT-TACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG
* * *
13627967 AAGCTACAAATCCTATACCTCTGAAGTTGC
65 AAGCTACAAATCTTATACCCCTAAAGTTGC
* * * ** * *
13627997 AGTGGGTTGGATTGAA-TCTAGCATAACGAATCTTATCTCCCTGAAGTTATAGTAGAGCAGATTA
1 AGTGGGTCGGATTGAAGT-TACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG
* * *
13628061 AAGCCACAAATCCTATACCCCTAAAGTTGT
65 AAGCTACAAATCTTATACCCCTAAAGTTGC
** * * * *
13628091 AGTGGGTCAAATTTAAGTTACCATAGCGAATTTTATCTCTCTGAAGTTGCAATGGAGCAAGA-TG
1 AGTGGGTCGGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGC-AGATTG
13628155 AAGCTACAAATCTTAT
65 AAGCTACAAATCTTAT
13628171 CTCTTTAAAG
Statistics
Matches: 520, Mismatches: 113, Indels: 20
0.80 0.17 0.03
Matches are distributed among these distances:
92 1 0.00
93 84 0.16
94 423 0.81
95 12 0.02
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (94 bp):
AGTGGGTCGGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
AGCTACAAATCTTATACCCCTAAAGTTGC
Found at i:13628230 original size:375 final size:374
Alignment explanation
Indices: 13627470--13628232 Score: 824
Period size: 375 Copynumber: 2.0 Consensus size: 374
13627460 CAAATCTTAT
* * *
13627470 CTCCCTAAAGTTGCAGTGGAGCAAATTAAAGCTACAAATCTTATACCCCTAAAGTTACAGTGGTT
1 CTCCCTAAAGTTGCAGTGAAACAAATTAAAGCTACAAATCTTATACCCCTAAAGTTACAGTGGAT
* * * *
13627535 TGGATTAAGTTTACCATAGCGAATCTTATCTCCCTAAAGTTGAAGTGGAGCAGATTGAAACTACG
66 CGGATTAAGTCTACCATAACGAATCTTATCTCCCTAAAGTTGAAGTGGAGCAGATTGAAACTACA
* * * * * * **
13627600 AATCTTATAGCTTTGAAGTTGCAGTGGGTCAAATTGAAGTTATCATAGCTAATCTTATCTCTTTG
131 AATCCTATACCTCTGAAGTTGCAGTGGGTCAAATTGAAGTTAGCATAACGAATCTTATCTCCCTG
* * * * * * * *
13627665 AAGTTGCAGTGGAGTATATTAATGATACAAATCCTGTACCCCTAAAGATGCAGTGGGTCAGATTA
196 AAGTTACAGTAGAGCAGATTAAAGACACAAATCCTATACCCCTAAAGATGCAGTGGGTCAAATTA
* * *
13627730 AATCTATCATAGCGAACCTTATCTATCTGAAATTATAGTAGAGCAGATTGAAGCTAAAAATCCTA
261 AATCTACCATAGCGAACCTTATCTATCTGAAATTACAATAGAGCAGATTGAAGCTAAAAATCCTA
* * ** * * * * *
13627795 TACCCTTGAAGTTGCAGTGGGTTGGATTAAAGTTACCATAGTGAATCTTAT
326 TACCCTTAAAGTTGCAATGGGTAAGATGAAACTTAACATA--GAATCCTAC
* * * *
13627846 CTCCCTAAAGTTGCAGTGAAACAGA-TGAAGCTACAAATCTTATACCCTTAAAGTTGCAGTGGAT
1 CTCCCTAAAGTTGCAGTGAAACAAATTAAAGCTACAAATCTTATACCCCTAAAGTTACAGTGGAT
* *
13627910 CGGATTGAA-TCTACTATAACGAATCTTATCTCCCTGAAGTT-ATAGTGGAGCAGATT-AAAGCT
66 CGGATT-AAGTCTACCATAACGAATCTTATCTCCCTAAAGTTGA-AGTGGAGCAGATTGAAA-CT
***
13627972 ACAAATCCTATACCTCTGAAGTTGCAGTGGGTTGGATTGAA-TCTAGCATAACGAATCTTATCTC
128 ACAAATCCTATACCTCTGAAGTTGCAGTGGGTCAAATTGAAGT-TAGCATAACGAATCTTATCTC
* * * *
13628036 CCTGAAGTTATAGTAGAGCAGATTAAAGCCACAAATCCTATACCCCTAAAGTTGTAGTGGGTCAA
192 CCTGAAGTTACAGTAGAGCAGATTAAAGACACAAATCCTATACCCCTAAAGATGCAGTGGGTCAA
* ** * * * * *
13628101 ATTTAAGT-TACCATAGCGAATTTTATCTCTCTGAAGTTGCAATGGAGCAAGA-TGAAGCTACAA
257 A-TTAAATCTACCATAGCGAACCTTATCTATCTGAAATTACAATAGAGC-AGATTGAAGCTAAAA
* *
13628164 ATCTTAT-CTCTTTAAAGTTGCAATGGAGTAAGATGAAACTATAACACTA-AATCCTAC
320 ATCCTATAC-CCTTAAAGTTGCAATGG-GTAAGATGAAACT-TAACA-TAGAATCCTAC
*
13628221 CTTCCTAAAGTT
1 CTCCCTAAAGTT
13628233 ATAGCAAATT
Statistics
Matches: 318, Mismatches: 59, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
374 6 0.02
375 265 0.83
376 41 0.13
377 4 0.01
378 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (374 bp):
CTCCCTAAAGTTGCAGTGAAACAAATTAAAGCTACAAATCTTATACCCCTAAAGTTACAGTGGAT
CGGATTAAGTCTACCATAACGAATCTTATCTCCCTAAAGTTGAAGTGGAGCAGATTGAAACTACA
AATCCTATACCTCTGAAGTTGCAGTGGGTCAAATTGAAGTTAGCATAACGAATCTTATCTCCCTG
AAGTTACAGTAGAGCAGATTAAAGACACAAATCCTATACCCCTAAAGATGCAGTGGGTCAAATTA
AATCTACCATAGCGAACCTTATCTATCTGAAATTACAATAGAGCAGATTGAAGCTAAAAATCCTA
TACCCTTAAAGTTGCAATGGGTAAGATGAAACTTAACATAGAATCCTAC
Found at i:13628460 original size:17 final size:17
Alignment explanation
Indices: 13628438--13628470 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
13628428 GACAAAACAA
13628438 AACAAAAACAAATAAAC
1 AACAAAAACAAATAAAC
13628455 AACAAAAACAAATAAA
1 AACAAAAACAAATAAA
13628471 AGTCTAGGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.15, G:0.00, T:0.06
Consensus pattern (17 bp):
AACAAAAACAAATAAAC
Found at i:13630263 original size:42 final size:42
Alignment explanation
Indices: 13630202--13630299 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
13630192 CTATATGAAC
* *
13630202 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
1 GGCACTAAGTGTGCAAAATTAAAATAATGATGTTGAATAACG
*
13630244 GGCACTAAGTGTGCAAAATTAAAATGATGATGTTGAATAACG
1 GGCACTAAGTGTGCAAAATTAAAATAATGATGTTGAATAACG
13630286 GGCACTAAGTGTGC
1 GGCACTAAGTGTGC
13630300 GATACCGAGA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.26
Consensus pattern (42 bp):
GGCACTAAGTGTGCAAAATTAAAATAATGATGTTGAATAACG
Found at i:13633835 original size:9 final size:9
Alignment explanation
Indices: 13633818--13633902 Score: 98
Period size: 9 Copynumber: 9.4 Consensus size: 9
13633808 TGTATGATTC
*
13633818 AATTAGGTT
1 AATTCGGTT
13633827 AATTCGGTT
1 AATTCGGTT
*
13633836 AATTCGGGT
1 AATTCGGTT
* *
13633845 AATTTGGGT
1 AATTCGGTT
13633854 AATTCGGTT
1 AATTCGGTT
*
13633863 AATTCGGGT
1 AATTCGGTT
*
13633872 AATTCAGTT
1 AATTCGGTT
*
13633881 AATTTGGTT
1 AATTCGGTT
*
13633890 AATTCGGCT
1 AATTCGGTT
13633899 AATT
1 AATT
13633903 TTTAACCAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 64 1.00
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:13633856 original size:27 final size:27
Alignment explanation
Indices: 13633820--13633903 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 27
13633810 TATGATTCAA
13633820 TTAGGTTAATTCGGTTAATTCGGGTAAT
1 TTAGG-TAATTCGGTTAATTCGGGTAAT
*
13633848 TTGGGTAATTCGGTTAATTCGGGTAAT
1 TTAGGTAATTCGGTTAATTCGGGTAAT
* * * *
13633875 TCAGTTAATTTGGTTAATTCGGCTAAT
1 TTAGGTAATTCGGTTAATTCGGGTAAT
13633902 TT
1 TT
13633904 TTAACCAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 45 0.92
28 4 0.08
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (27 bp):
TTAGGTAATTCGGTTAATTCGGGTAAT
Found at i:13635575 original size:19 final size:20
Alignment explanation
Indices: 13635537--13635576 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13635527 ATGCATGAAA
* *
13635537 TTTAAAAAATAACTCTTAAT
1 TTTAAAAAATAAATCGTAAT
13635557 TTTAAAAAATAAAT-GTAAT
1 TTTAAAAAATAAATCGTAAT
13635576 T
1 T
13635577 ATCTAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (20 bp):
TTTAAAAAATAAATCGTAAT
Found at i:13635717 original size:20 final size:19
Alignment explanation
Indices: 13635692--13635732 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
13635682 AAATTAAGAG
13635692 TTATTT-TTTAATTTTATGTA
1 TTATTTATTT-ATTTTAT-TA
13635712 TTATTTATTTATTTTATTA
1 TTATTTATTTATTTTATTA
13635731 TT
1 TT
13635733 TTTCACATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 13 0.65
21 3 0.15
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
TTATTTATTTATTTTATTA
Found at i:13637574 original size:10 final size:10
Alignment explanation
Indices: 13637561--13637620 Score: 68
Period size: 10 Copynumber: 6.0 Consensus size: 10
13637551 ATAAAAATCA
*
13637561 ATAAAAAGTT
1 ATAAAAAATT
13637571 AT-AAAAATT
1 ATAAAAAATT
*
13637580 GTAAAAAAATT
1 AT-AAAAAATT
13637591 ATAAAAAATT
1 ATAAAAAATT
* *
13637601 GTAAAAATTT
1 ATAAAAAATT
13637611 ATAAAAAATT
1 ATAAAAAATT
13637621 TTTGTAAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
9 7 0.17
10 26 0.63
11 8 0.20
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:13637584 original size:9 final size:9
Alignment explanation
Indices: 13637551--13637617 Score: 53
Period size: 10 Copynumber: 6.8 Consensus size: 9
13637541 AAATATAAAA
*
13637551 ATAAAAATCA
1 ATAAAAAT-T
13637561 ATAAAAAGTT
1 ATAAAAA-TT
13637571 ATAAAAATTGT
1 ATAAAAA-T-T
*
13637582 AAAAAAATT
1 ATAAAAATT
13637591 ATAAAAAATT
1 AT-AAAAATT
*
13637601 GTAAAAATTT
1 ATAAAAA-TT
13637611 ATAAAAA
1 ATAAAAA
13637618 ATTTTTGTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
9 7 0.15
10 32 0.68
11 8 0.17
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (9 bp):
ATAAAAATT
Found at i:13637587 original size:21 final size:21
Alignment explanation
Indices: 13637563--13637620 Score: 84
Period size: 20 Copynumber: 2.9 Consensus size: 21
13637553 AAAAATCAAT
*
13637563 AAAAAGTTAT-AAAAATTGTA
1 AAAAAATTATAAAAAATTGTA
13637583 AAAAAATTATAAAAAATTGT-
1 AAAAAATTATAAAAAATTGTA
*
13637603 AAAAATTTATAAAAAATT
1 AAAAAATTATAAAAAATT
13637621 TTTGTAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 26 0.74
21 9 0.26
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (21 bp):
AAAAAATTATAAAAAATTGTA
Found at i:13637595 original size:30 final size:30
Alignment explanation
Indices: 13637561--13637620 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
13637551 ATAAAAATCA
*
13637561 ATAAAAAGTTATAAAAATTGTA-AAAAAATT
1 ATAAAAAATTATAAAAATT-TATAAAAAATT
*
13637591 ATAAAAAATTGTAAAAATTTATAAAAAATT
1 ATAAAAAATTATAAAAATTTATAAAAAATT
13637621 TTTGTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (30 bp):
ATAAAAAATTATAAAAATTTATAAAAAATT
Found at i:13637720 original size:19 final size:18
Alignment explanation
Indices: 13637697--13637747 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
13637687 AAGTCATAAG
*
13637697 AAAATTATAAAAAT-GTA
1 AAAAATATAAAAATCGTA
*
13637714 AAGAAATATAAAATTCGTAA
1 AA-AAATATAAAAATCGT-A
13637734 AAAAATATAAAAAT
1 AAAAATATAAAAAT
13637748 TATCGTACCA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 2 0.07
18 10 0.36
19 13 0.46
20 3 0.11
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (18 bp):
AAAAATATAAAAATCGTA
Found at i:13637944 original size:21 final size:21
Alignment explanation
Indices: 13637919--13637958 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13637909 TTACATGACC
13637919 TTTTTGATACATTTTACAAAA
1 TTTTTGATACATTTTACAAAA
* **
13637940 TTTTTTATATGTTTTACAA
1 TTTTTGATACATTTTACAA
13637959 TTTTTATAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (21 bp):
TTTTTGATACATTTTACAAAA
Found at i:13638001 original size:19 final size:19
Alignment explanation
Indices: 13637979--13638031 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
13637969 TTTTTTTCTA
*
13637979 ATTTTTAAAAATTTTAAAT
1 ATTTTTAAAAATTTTAAAC
*
13637998 ATTTTATTAAAA-TTT-AAC
1 ATTTT-TAAAAATTTTAAAC
*
13638016 ATTTTTATAAATTTTA
1 ATTTTTAAAAATTTTA
13638032 TTGATTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
17 4 0.15
18 10 0.37
19 8 0.30
20 5 0.19
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTTAAAAATTTTAAAC
Found at i:13638002 original size:18 final size:18
Alignment explanation
Indices: 13637979--13638031 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
13637969 TTTTTTTCTA
13637979 ATTTTTAAAAATTTTAA-
1 ATTTTTAAAAATTTTAAC
13637996 ATATTTTATTAAAA-TTTAAC
1 AT-TTTTA--AAAATTTTAAC
*
13638016 ATTTTTATAAATTTTA
1 ATTTTTAAAAATTTTA
13638032 TTGATTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
17 5 0.17
18 9 0.30
19 10 0.33
20 6 0.20
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTTAAAAATTTTAAC
Found at i:13639506 original size:73 final size:73
Alignment explanation
Indices: 13639424--13639562 Score: 226
Period size: 73 Copynumber: 1.9 Consensus size: 73
13639414 GGAATAACTT
* *
13639424 TTTATTGGTTGGTGTAAACCATGACAGGTGTTAGACTATCGAGA-CTTACTTGAAAATATAAATT
1 TTTATTGGTTAGTGTAAACCATGACACGTGTTAGACTATCGAGATC-TACTTGAAAATATAAATT
13639488 AGATTCCTC
65 AGATTCCTC
**
13639497 TTTATTGGTTAGTGTAAACCATGACACGTGTTAGGTTATCGAGATCTACTTGAAAATATAAATTA
1 TTTATTGGTTAGTGTAAACCATGACACGTGTTAGACTATCGAGATCTACTTGAAAATATAAATTA
13639562 G
66 G
13639563 TAGATAGCAA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
73 60 0.98
74 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.36
Consensus pattern (73 bp):
TTTATTGGTTAGTGTAAACCATGACACGTGTTAGACTATCGAGATCTACTTGAAAATATAAATTA
GATTCCTC
Found at i:13641248 original size:19 final size:19
Alignment explanation
Indices: 13641226--13641262 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13641216 AAGACGTACC
*
13641226 TCGTGTGCCAGGATGCACT
1 TCGTGTGCCAGAATGCACT
13641245 TCGTGTGCCAGAATGCAC
1 TCGTGTGCCAGAATGCAC
13641263 ATTATGTGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.27, G:0.30, T:0.24
Consensus pattern (19 bp):
TCGTGTGCCAGAATGCACT
Found at i:13641270 original size:19 final size:19
Alignment explanation
Indices: 13641229--13641274 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
13641219 ACGTACCTCG
* *
13641229 TGTGCCAGGATGCACTTCG
1 TGTGCCAGAATGCACTTCA
13641248 TGTGCCAGAATGCACATT-A
1 TGTGCCAGAATGCAC-TTCA
13641267 TGTGCCAG
1 TGTGCCAG
13641275 TTATTTTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 22 0.92
20 2 0.08
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (19 bp):
TGTGCCAGAATGCACTTCA
Found at i:13641927 original size:25 final size:25
Alignment explanation
Indices: 13641899--13641952 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
13641889 AATTTGTAAA
13641899 GTACCCTTTTGATTGTAAATGACAT
1 GTACCCTTTTGATTGTAAATGACAT
13641924 GTACCCTTTTGATTGTAAATGACAT
1 GTACCCTTTTGATTGTAAATGACAT
13641949 GTAC
1 GTAC
13641953 TTAGGGTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (25 bp):
GTACCCTTTTGATTGTAAATGACAT
Found at i:13642677 original size:8 final size:8
Alignment explanation
Indices: 13642664--13642710 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
13642654 TTAATTAATT
13642664 TTTAAAAA
1 TTTAAAAA
13642672 TTTAAAAA
1 TTTAAAAA
13642680 TTATAAAAA
1 TT-TAAAAA
* **
13642689 TTT-TATT
1 TTTAAAAA
13642696 TTTAAAAA
1 TTTAAAAA
13642704 TTTAAAA
1 TTTAAAA
13642711 TTATTAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
7 4 0.13
8 19 0.61
9 8 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TTTAAAAA
Found at i:13642714 original size:31 final size:32
Alignment explanation
Indices: 13642661--13642721 Score: 106
Period size: 31 Copynumber: 1.9 Consensus size: 32
13642651 CATTTAATTA
13642661 ATTTTTAAAAATTTAAAAATTATAAAAATTTT
1 ATTTTTAAAAATTTAAAAATTATAAAAATTTT
*
13642693 ATTTTTAAAAATTT-AAAATTATTAAAATT
1 ATTTTTAAAAATTTAAAAATTATAAAAATT
13642722 ATTGAAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
ATTTTTAAAAATTTAAAAATTATAAAAATTTT
Found at i:13642748 original size:10 final size:9
Alignment explanation
Indices: 13642666--13642748 Score: 52
Period size: 9 Copynumber: 9.7 Consensus size: 9
13642656 AATTAATTTT
13642666 TAAAAATT-
1 TAAAAATTA
13642674 TAAAAATTA
1 TAAAAATTA
13642683 TAAAAATT-
1 TAAAAATTA
* * *
13642691 T--TATTTT
1 TAAAAATTA
13642698 TAAAAATT-
1 TAAAAATTA
13642706 T-AAAATTA
1 TAAAAATTA
*
13642714 TTAAAATTA
1 TAAAAATTA
* *
13642723 TTGAAAAGTA
1 -TAAAAATTA
13642733 TAAAAATTA
1 TAAAAATTA
13642742 TACAAAA
1 TA-AAAA
13642749 ATATTTTTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
6 3 0.05
7 7 0.12
8 11 0.19
9 27 0.46
10 11 0.19
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (9 bp):
TAAAAATTA
Found at i:13646497 original size:38 final size:38
Alignment explanation
Indices: 13646455--13646528 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
13646445 TTAGTGTTAG
13646455 TATTTATGCAAGAAATTTAATGAAATTGGCGATTTTAA
1 TATTTATGCAAGAAATTTAATGAAATTGGCGATTTTAA
13646493 TATTTATGCAAGAAATTTAATGAAATTGGCGATTTT
1 TATTTATGCAAGAAATTTAATGAAATTGGCGATTTT
13646529 GTGTTGAGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (38 bp):
TATTTATGCAAGAAATTTAATGAAATTGGCGATTTTAA
Found at i:13649215 original size:40 final size:40
Alignment explanation
Indices: 13649160--13649263 Score: 174
Period size: 40 Copynumber: 2.6 Consensus size: 40
13649150 TTGTTGAATA
*
13649160 CACATGCGTGCCCCTGTTTGTACTTCGATACCCCTAAATG
1 CACATACGTGCCCCTGTTTGTACTTCGATACCCCTAAATG
* *
13649200 CACATACGTGCCCCTGTTTGTATTTCGATACCCCTGAATG
1 CACATACGTGCCCCTGTTTGTACTTCGATACCCCTAAATG
13649240 CACATACGTG-CCCTGTTTGTACTT
1 CACATACGTGCCCCTGTTTGTACTT
13649264 TGGTAACCCT
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 13 0.22
40 47 0.78
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (40 bp):
CACATACGTGCCCCTGTTTGTACTTCGATACCCCTAAATG
Found at i:13650069 original size:54 final size:54
Alignment explanation
Indices: 13649987--13650099 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
13649977 AGCCAGTGAA
* *
13649987 TTACACGGCCTAGCACACAGCCTAACACATGGGCATGTGTGG-TAACTCAGAGAG
1 TTACACGGCCTAGCACACAGCCTAACACACGGGCATGTGGGGCT-ACTCAGAGAG
* * * *
13650041 TTACACGGCCTAGCACACGGCCTGACACACGGGCTTGTGGGGCTACTCAGTGAG
1 TTACACGGCCTAGCACACAGCCTAACACACGGGCATGTGGGGCTACTCAGAGAG
13650095 TTACA
1 TTACA
13650100 TGGGTGAGGA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 51 0.98
55 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.27, T:0.19
Consensus pattern (54 bp):
TTACACGGCCTAGCACACAGCCTAACACACGGGCATGTGGGGCTACTCAGAGAG
Found at i:13652129 original size:30 final size:31
Alignment explanation
Indices: 13652048--13652130 Score: 78
Period size: 31 Copynumber: 2.7 Consensus size: 31
13652038 CTTAATAGCC
* * * **
13652048 CAATACCTTAATTAAAAGCTTTTAAATAGTT
1 CAATAACTTAAATAAAAACTTTCGAATAGTT
**
13652079 CGGTAACTTAAATAAAAACTTTCGAATAGTT
1 CAATAACTTAAATAAAAACTTTCGAATAGTT
* *
13652110 CAATAAC-TAAATTATAACTTT
1 CAATAACTTAAATAAAAACTTT
13652131 TTTTTACTAA
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
30 12 0.29
31 29 0.71
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.36
Consensus pattern (31 bp):
CAATAACTTAAATAAAAACTTTCGAATAGTT
Found at i:13654283 original size:108 final size:106
Alignment explanation
Indices: 13654085--13654487 Score: 336
Period size: 106 Copynumber: 3.8 Consensus size: 106
13654075 TAGTGTAAGC
* * * ** * * *
13654085 ACATGGAGATGCACAACCAAGCAAAACAAAGCACATA-AAAACTACGAGTCTAGATCATTAT-AT
1 ACATGGAGATACACAACTATGCAAAACAAAG-GTATACAAAACTATGAGTCTACATCATTATAAC
* * * * * * **
13654148 CTTGGGGAAAAGTGACTTCCAACCACCAAAAACCCAAAAAATAAT
65 CTTGGGAAAAAGAGCCCTGCAATCACCAAAAA--CAATCAA-AAT
* * ** *
13654193 ACATGGAGATACACAAATATGCAAAACAAAGTGTATA-AAAACTATAAGTCTATTTTATTAT-AC
1 ACATGGAGATACACAACTATGCAAAACAAAG-GTATACAAAACTATGAGTCTACATCATTATAAC
* ** *
13654256 CTTGGGAAAAAGAGCCCTGCAATCACCACAATTAATCCAAAT
65 CTTGGGAAAAAGAGCCCTGCAATCACCAAAAACAATCAAAAT
* * *
13654298 ACACGGAGATACACAATTATGCAAAACAAA-GTATACAAAACTATGAGCCTACATCATTATAACC
1 ACATGGAGATACACAACTATGCAAAACAAAGGTATACAAAACTATGAGTCTACATCATTATAACC
* * * ** * * *
13654362 TTGGAAAAAAAGATCCATGCAATTGCCACAAAGAATCTAAAT
66 TTGG-GAAAAAGAGCCCTGCAATCACCAAAAACAATCAAAAT
* *
13654404 ACATGAAGATACACAACTATGCAAAACAAAGG-ATATAAAACTATGAGTCTACA-CAATTATAAC
1 ACATGGAGATACACAACTATGCAAAACAAAGGTATACAAAACTATGAGTCTACATC-ATTATAAC
13654467 CTTTGGG-AAAAGAGCCCTGCA
65 C-TTGGGAAAAAGAGCCCTGCA
13654488 GCCACCACAA
Statistics
Matches: 241, Mismatches: 48, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
103 5 0.02
104 19 0.08
105 51 0.21
106 87 0.36
107 5 0.02
108 74 0.31
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.21
Consensus pattern (106 bp):
ACATGGAGATACACAACTATGCAAAACAAAGGTATACAAAACTATGAGTCTACATCATTATAACC
TTGGGAAAAAGAGCCCTGCAATCACCAAAAACAATCAAAAT
Found at i:13654363 original size:105 final size:104
Alignment explanation
Indices: 13654190--13654500 Score: 358
Period size: 106 Copynumber: 3.0 Consensus size: 104
13654180 CCCAAAAAAT
* ** *
13654190 AATACATGGAGATACACAAATATGCAAAACAAAGTGTATAAAAACTATAAGTCTATTTTATTAT-
1 AATACATGGAGATACACAAATATGCAAAACAAA--GTATAAAAACTATGAGTCTACATCATTATA
13654254 ACCTTGGGAAAAAGAGCCCTGCAATCACCACAATTAATCCA
64 ACCTTGGGAAAAAGAGCCCTGCAATCACCACAATTAATCCA
* * *
13654295 AATACACGGAGATACACAATTATGCAAAACAAAGTATACAAAACTATGAGCCTACATCATTATAA
1 AATACATGGAGATACACAAATATGCAAAACAAAGTATA-AAAACTATGAGTCTACATCATTATAA
* * * ** ** *
13654360 CCTTGGAAAAAAAGATCCATGCAATTGCCACAAAGAATCTA
65 CCTTGG-GAAAAAGAGCCCTGCAATCACCACAATTAATCCA
* * *
13654401 AATACATGAAGATACACAACTATGCAAAACAAAGGATATAAAACTATGAGTCTACA-CAATTATA
1 AATACATGGAGATACACAAATATGCAAAACAAAGTATA-AAAACTATGAGTCTACATC-ATTATA
**
13654465 ACCTTTGGG-AAAAGAGCCCTGCAGCCACCACAATTA
64 ACC-TTGGGAAAAAGAGCCCTGCAATCACCACAATTA
13654501 GGGGAGAAGA
Statistics
Matches: 171, Mismatches: 30, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
103 5 0.03
104 19 0.11
105 58 0.34
106 85 0.50
107 4 0.02
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.22
Consensus pattern (104 bp):
AATACATGGAGATACACAAATATGCAAAACAAAGTATAAAAACTATGAGTCTACATCATTATAAC
CTTGGGAAAAAGAGCCCTGCAATCACCACAATTAATCCA
Found at i:13659307 original size:2 final size:2
Alignment explanation
Indices: 13659300--13659327 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13659290 AAGTTTTCTC
13659300 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
13659328 TTAGAATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13669847 original size:29 final size:29
Alignment explanation
Indices: 13669814--13669877 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
13669804 GGGTAGATTG
* *
13669814 AAAGATTGAAAATTTGAAGTTGGTTGGAT
1 AAAGATTGAAAATTTGAAATTGGCTGGAT
*
13669843 AAAGATTGATAATTTGAAATTGGCTGGAT
1 AAAGATTGAAAATTTGAAATTGGCTGGAT
13669872 AAAGAT
1 AAAGAT
13669878 AAAATTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.41, C:0.02, G:0.25, T:0.33
Consensus pattern (29 bp):
AAAGATTGAAAATTTGAAATTGGCTGGAT
Found at i:13669949 original size:18 final size:18
Alignment explanation
Indices: 13669911--13669949 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
13669901 AATTCTATAA
* *
13669911 TTAGTTTAAATTTGATCT
1 TTAGTTCAAATTTAATCT
*
13669929 TTAGTTCAAATTTAATTT
1 TTAGTTCAAATTTAATCT
13669947 TTA
1 TTA
13669950 AATTTTGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.56
Consensus pattern (18 bp):
TTAGTTCAAATTTAATCT
Found at i:13673657 original size:21 final size:21
Alignment explanation
Indices: 13673628--13673669 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
13673618 AGGTCGGCCA
13673628 TGCTATATTCAAAATCCCACG
1 TGCTATATTCAAAATCCCACG
* *
13673649 TGCTGTATTCAAAATCTCACG
1 TGCTATATTCAAAATCCCACG
13673670 AACAAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (21 bp):
TGCTATATTCAAAATCCCACG
Found at i:13675099 original size:14 final size:14
Alignment explanation
Indices: 13675080--13675109 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13675070 GCTACCATTT
13675080 TACTATTATGTTGC
1 TACTATTATGTTGC
*
13675094 TACTATTTTGTTGC
1 TACTATTATGTTGC
13675108 TA
1 TA
13675110 TTGTTTGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (14 bp):
TACTATTATGTTGC
Found at i:13675174 original size:30 final size:30
Alignment explanation
Indices: 13675140--13675201 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
13675130 ACTTATTTTA
13675140 TTGTTAATTTTGTTATCATTTTAAAGACAT
1 TTGTTAATTTTGTTATCATTTTAAAGACAT
* * *
13675170 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATCATTTTAAAGACAT
13675200 TT
1 TT
13675202 ACTTTTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATCATTTTAAAGACAT
Found at i:13675285 original size:54 final size:54
Alignment explanation
Indices: 13675226--13675436 Score: 422
Period size: 54 Copynumber: 3.9 Consensus size: 54
13675216 ATTTATCTTA
13675226 GTGTTATTTAAGTCTACATATTTTTTAAAATTTATTTTCAATTTGTTGGGAAAT
1 GTGTTATTTAAGTCTACATATTTTTTAAAATTTATTTTCAATTTGTTGGGAAAT
13675280 GTGTTATTTAAGTCTACATATTTTTTAAAATTTATTTTCAATTTGTTGGGAAAT
1 GTGTTATTTAAGTCTACATATTTTTTAAAATTTATTTTCAATTTGTTGGGAAAT
13675334 GTGTTATTTAAGTCTACATATTTTTTAAAATTTATTTTCAATTTGTTGGGAAAT
1 GTGTTATTTAAGTCTACATATTTTTTAAAATTTATTTTCAATTTGTTGGGAAAT
13675388 GTGTTATTTAAGTCTACATATTTTTTAAAATTTATTTTCAATTTGTTGG
1 GTGTTATTTAAGTCTACATATTTTTTAAAATTTATTTTCAATTTGTTGG
13675437 AAGATATTTA
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 157 1.00
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.53
Consensus pattern (54 bp):
GTGTTATTTAAGTCTACATATTTTTTAAAATTTATTTTCAATTTGTTGGGAAAT
Found at i:13676038 original size:14 final size:15
Alignment explanation
Indices: 13676000--13676042 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
13675990 ATATTTTATT
13676000 TTATTTATTTTT-AA
1 TTATTTATTTTTAAA
*
13676014 TTCATTAATTTTTAAA
1 TT-ATTTATTTTTAAA
13676030 TT-TTTATTTTTAA
1 TTATTTATTTTTAA
13676043 TAAAAACAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 12 0.48
15 9 0.36
16 4 0.16
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATTTATTTTTAAA
Found at i:13690147 original size:30 final size:30
Alignment explanation
Indices: 13690061--13690150 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 30
13690051 ATTTCTTTAA
* * *
13690061 ATGTGTATGATTGAATCAAAGTTAAAGTTTC
1 ATGTGTATCATTGAACCAAA-TCAAAGTTTC
* *
13690092 ATGTATA-CATTTAAACCACAATCAAAGTTTC
1 ATGTGTATCA-TTGAACCA-AATCAAAGTTTC
*
13690123 ATGTGTATCATTGCACCAAATCAAAGTT
1 ATGTGTATCATTGAACCAAATCAAAGTT
13690151 CGTGTATCAT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
30 11 0.23
31 33 0.69
32 4 0.08
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.34
Consensus pattern (30 bp):
ATGTGTATCATTGAACCAAATCAAAGTTTC
Found at i:13692767 original size:132 final size:131
Alignment explanation
Indices: 13692558--13692989 Score: 675
Period size: 132 Copynumber: 3.3 Consensus size: 131
13692548 CTCCCGAAGC
* * * *
13692558 AGCAGTAGAGTAGGTCGAAGATTGTAGATCCTATCTCCCTAAGTAGTAGTGGAGCAGATAGAAGA
1 AGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATAGAAGA
13692623 CGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTGTCTCCTTGA
66 CGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTGTCTCC-TGA
13692688 GA
130 GA
*
13692690 AGCAGTGGAGTAGGTTAAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATAGAAGA
1 AGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATAGAAGA
* *
13692755 CGACGAATCTTATCTTCCCAAGGTAGTAGGGAAACAGATTTAAGCCACTAGCCTTGTCTCACTGA
66 CGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTGTCTC-CTGA
13692820 GA
130 GA
* * * *
13692822 AGCAGTGGAGTAGGTTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGAAACAGATCGAAGA
1 AGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATAGAAGA
* * *
13692887 CGGCGAATCTTATCTTCTCAAGGTAATAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGA
66 CGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTGTCT-CCTGA
13692952 GA
130 GA
* * * *
13692954 AGCAATGGAGTAGGTTGAAGATAGCAGATCTTGTCT
1 AGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCT
13692990 TATTGTATTG
Statistics
Matches: 278, Mismatches: 20, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
132 276 0.99
133 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (131 bp):
AGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATAGAAGA
CGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTGTCTCCTGAG
A
Found at i:13693019 original size:45 final size:45
Alignment explanation
Indices: 13692970--13693169 Score: 292
Period size: 45 Copynumber: 4.4 Consensus size: 45
13692960 GGAGTAGGTT
** *
13692970 GAAGATAGCAGATCTTGTCTTATTGTATTGCCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
13693015 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
13693060 GAAGATAGTAGATCTTATCTTCCTGTATTGGCAGCAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
13693105 GAAGATAGCAGATCTTGTCTTCCTATATTAGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
13693150 GAAGATTGTAGATCCTGTCT
1 GAAGATAGCAGATCTTGTCT
13693170 CCCTAAGCGA
Statistics
Matches: 140, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 140 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
Found at i:13696311 original size:51 final size:50
Alignment explanation
Indices: 13696226--13696365 Score: 132
Period size: 44 Copynumber: 2.9 Consensus size: 50
13696216 CATAGTGAAT
* * * *
13696226 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATCACAAAC
1 CTTATCTCTCTGAAGTTGCAGT-GAGCAGGTTGAAGCTATAAATCACAAAC
13696277 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA-C--T--A--ACAAAC
1 CTTATCTCTCTGAAGTTGCAGT-GAGCAGGTTGAAGCTATAAATCACAAAC
* * * *
13696321 CTTATCCCTCTGAAGTTGCAATGAGGCAGGTTGAAGATACAAATC
1 CTTATCTCTCTGAAGTTGCAGTGA-GCAGGTTGAAGCTATAAATC
13696366 TTATCTCCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
43 2 0.03
44 36 0.50
46 1 0.01
48 1 0.01
49 1 0.01
50 1 0.01
51 30 0.42
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (50 bp):
CTTATCTCTCTGAAGTTGCAGTGAGCAGGTTGAAGCTATAAATCACAAAC
Found at i:13696399 original size:44 final size:44
Alignment explanation
Indices: 13696271--13696563 Score: 202
Period size: 44 Copynumber: 6.6 Consensus size: 44
13696261 GCTATAAATC
* * * * *
13696271 ACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA-CT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT
* * *
13696314 AACAAACCTTATC-CCTCTGAAGTTGCAAT-GAGGCAGGTTGAAGAT
1 -ACAAATCTTATCTCC-CTGAAGTTGCAGTGGA-GCAGATTGAAGAT
*
13696359 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGACCGGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-----T
* * * **
13696408 ACAAATCTTATCTCCTTGAAGTCGCAGTGAAGCAGATT-AGAGCC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGAT
* * ** * * *
13696452 ATAAACCTTATC-CCCCAAAG-TGCAGTGGGGCAGGTTGAATAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT
* * * * * *
13696494 GCAAGTCTTATCTCACTGAAGTTGTAGTGGAGCAGACTGAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT
* *
13696538 ACTAATCCTATCTCCCTGAAGTTGCA
1 ACAAATCTTATCTCCCTGAAGTTGCA
13696564 TTAGGAGCGG
Statistics
Matches: 191, Mismatches: 44, Indels: 28
0.73 0.17 0.11
Matches are distributed among these distances:
42 21 0.11
43 14 0.07
44 113 0.59
45 5 0.03
48 1 0.01
49 37 0.19
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT
Found at i:13698552 original size:20 final size:21
Alignment explanation
Indices: 13698529--13698573 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
13698519 TTGCTCATAT
13698529 TATTT-TTATTTACATTAT-CA
1 TATTTGTTA-TTACATTATACA
*
13698549 TATTTGTTATTCCATTATACA
1 TATTTGTTATTACATTATACA
13698570 TATT
1 TATT
13698574 AACACCATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.29, C:0.11, G:0.02, T:0.58
Consensus pattern (21 bp):
TATTTGTTATTACATTATACA
Found at i:13698831 original size:107 final size:107
Alignment explanation
Indices: 13698612--13698912 Score: 498
Period size: 107 Copynumber: 2.8 Consensus size: 107
13698602 TCTAAATAAA
* * * *
13698612 GCAATATTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGAGTTTCGA-TTTCTCGT
1 GCAATATTTTGCGTTTGGAAATTCGAGAAAACGTTCCCTAATGTGCTGGGTTTCGATTTTTTCGT
*
13698676 TCGACCAAATAGCCAAATATCCTTCTAAAATTTCAAAGTAAG
66 TCGACCAAATAGCCAAATATCCTTCTAAAAATTCAAAGTAAG
*
13698718 GCAATATTTTGCGTTTGGAAATTCGAGAAAACGTTCCCTAATGTGCTGGGTTTTGATTTTTTCGT
1 GCAATATTTTGCGTTTGGAAATTCGAGAAAACGTTCCCTAATGTGCTGGGTTTCGATTTTTTCGT
*
13698783 TCGACCAAATAGCCAAATATCCTTTTAAAAATTCAAAGTAAG
66 TCGACCAAATAGCCAAATATCCTTCTAAAAATTCAAAGTAAG
*
13698825 GCAATATTTTGCGTTTGGAAATTCGAGAAAACATGT-CCTAATGTGCTGGGTTTCGATTTTTTCG
1 GCAATATTTTGCGTTTGGAAATTCGAGAAAACGT-TCCCTAATGTGCTGGGTTTCGATTTTTTCG
*
13698889 TTTGACCAAATAGCCAAATATCCT
65 TTCGACCAAATAGCCAAATATCCT
13698913 CTTTCACCTC
Statistics
Matches: 183, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
106 52 0.28
107 130 0.71
108 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (107 bp):
GCAATATTTTGCGTTTGGAAATTCGAGAAAACGTTCCCTAATGTGCTGGGTTTCGATTTTTTCGT
TCGACCAAATAGCCAAATATCCTTCTAAAAATTCAAAGTAAG
Found at i:13702111 original size:19 final size:19
Alignment explanation
Indices: 13702087--13702165 Score: 63
Period size: 19 Copynumber: 4.0 Consensus size: 19
13702077 CAAAATTATT
13702087 ATCTTTTAACTTTTTTAAA
1 ATCTTTTAACTTTTTTAAA
* *
13702106 ATCTTTTGACTTTCTTTATAT
1 ATCTTTTAACTTT-TTTA-AA
* *
13702127 ATTTTTTAGAATTTTTTAAAA
1 ATCTTTTA-ACTTTTTT-AAA
13702148 AT-TTTATAA-TTTTTTAAA
1 ATCTTT-TAACTTTTTTAAA
13702166 TATATAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
18 3 0.06
19 18 0.37
20 8 0.16
21 15 0.31
22 5 0.10
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (19 bp):
ATCTTTTAACTTTTTTAAA
Found at i:13702192 original size:26 final size:26
Alignment explanation
Indices: 13702145--13702194 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
13702135 GAATTTTTTA
* *
13702145 AAAATTTTATAATTTTTTAAATATAT
1 AAAATTTGATAATTTTTCAAATATAT
13702171 AAAATTTGA-AATTTTTACAAATAT
1 AAAATTTGATAATTTTT-CAAATAT
13702195 TTTAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
AAAATTTGATAATTTTTCAAATATAT
Found at i:13708359 original size:6 final size:6
Alignment explanation
Indices: 13708324--13708372 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
13708314 CCAAACACAC
* *
13708324 CAGTAAA CAGTAA TCAGTAA CGGTAA CAGTAG CAGTAA CAGTAA CAGTA
1 CAGT-AA CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
13708373 TTCAACACAC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
6 27 0.73
7 10 0.27
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.18
Consensus pattern (6 bp):
CAGTAA
Found at i:13708407 original size:45 final size:45
Alignment explanation
Indices: 13708350--13708501 Score: 241
Period size: 45 Copynumber: 3.4 Consensus size: 45
13708340 GTAACGGTAA
* * *
13708350 CAGTAGCAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* *
13708395 CTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* *
13708440 CGGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
13708485 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
13708502 GTCGGCACAT
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 98 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
Found at i:13710571 original size:30 final size:31
Alignment explanation
Indices: 13710518--13710576 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
13710508 CACCCTTAAA
** *
13710518 ATATTTACACTATTAGTCCTTCAACTTTTTC
1 ATATTTACACTATTAACCCTTCAAATTTTTC
13710549 ATATTTACACT-TTAACCCTTCAAATTTT
1 ATATTTACACTATTAACCCTTCAAATTTT
13710577 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAACCCTTCAAATTTTTC
Found at i:13710584 original size:30 final size:31
Alignment explanation
Indices: 13710518--13710586 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
13710508 CACCCTTAAA
** *
13710518 ATATTTACACTATTAGTCCTTCAACTTTTTC
1 ATATTTACACTATTAACCCTTCAACATTTTC
*
13710549 ATATTTACACT-TTAACCCTTCAA-ATTTTG
1 ATATTTACACTATTAACCCTTCAACATTTTC
13710578 AGTATTTAC
1 A-TATTTAC
13710587 TCTTGGGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 17 0.52
31 11 0.33
ACGTcount: A:0.29, C:0.20, G:0.04, T:0.46
Consensus pattern (31 bp):
ATATTTACACTATTAACCCTTCAACATTTTC
Found at i:13713911 original size:16 final size:16
Alignment explanation
Indices: 13713890--13713924 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
13713880 AAAAGAAAAG
13713890 AGAATTGAGAGGAAGA
1 AGAATTGAGAGGAAGA
13713906 AGAATTGAGAGGAAGA
1 AGAATTGAGAGGAAGA
13713922 AGA
1 AGA
13713925 TGAAGAGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.37, T:0.11
Consensus pattern (16 bp):
AGAATTGAGAGGAAGA
Found at i:13722594 original size:14 final size:14
Alignment explanation
Indices: 13722575--13722602 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13722565 CAACTTTTAG
13722575 TTAGTATTTAGCAA
1 TTAGTATTTAGCAA
13722589 TTAGTATTTAGCAA
1 TTAGTATTTAGCAA
13722603 ATGTATGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
TTAGTATTTAGCAA
Found at i:13723909 original size:69 final size:69
Alignment explanation
Indices: 13723836--13724100 Score: 368
Period size: 69 Copynumber: 3.8 Consensus size: 69
13723826 AGCTTTTAAT
* * *
13723836 AGCACTTTTACACCAAAATTTAACAGCATATATATAGCAAATAGGCAACATATACATACCAAATT
1 AGCACTTTTACACCAAAATTTAACAGCATATATACAACAAATAGGCAGCATATACATACCAAATT
*
13723901 TAAC
66 GAAC
* * * *
13723905 AGCACTTTTACACCAAAATTTAACAACATATATACAACAAATGGGCATCATATACATACTAAATT
1 AGCACTTTTACACCAAAATTTAACAGCATATATACAACAAATAGGCAGCATATACATACCAAATT
*
13723970 GAGC
66 GAAC
* *
13723974 AGCATTTTTACACAAAAATTTAACAGCATATATACAACAAATAGGCAGCATATACATACCAAATT
1 AGCACTTTTACACCAAAATTTAACAGCATATATACAACAAATAGGCAGCATATACATACCAAATT
**
13724039 GAGT
66 GAAC
* * * * *
13724043 AGCAATTTTACACCAAAATTGAATAGTATATATACAACAAATGGGCAGCATATACATA
1 AGCACTTTTACACCAAAATTTAACAGCATATATACAACAAATAGGCAGCATATACATA
13724101 ATACATCATA
Statistics
Matches: 175, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 175 1.00
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.26
Consensus pattern (69 bp):
AGCACTTTTACACCAAAATTTAACAGCATATATACAACAAATAGGCAGCATATACATACCAAATT
GAAC
Found at i:13723940 original size:24 final size:24
Alignment explanation
Indices: 13723844--13723945 Score: 70
Period size: 24 Copynumber: 4.4 Consensus size: 24
13723834 ATAGCACTTT
*
13723844 TACACCAAAATTTAACAGCATATA
1 TACACCAAAATTTAACAACATATA
* * *
13723868 TATAGC-AAA--TAGGCAACATATA
1 TACACCAAAATTTA-ACAACATATA
* * * *
13723890 CATACC-AAATTTAACAGCACT-TT
1 TACACCAAAATTTAACAACA-TATA
13723913 TACACCAAAATTTAACAACATATA
1 TACACCAAAATTTAACAACATATA
*
13723937 TACAACAAA
1 TACACCAAA
13723946 TGGGCATCAT
Statistics
Matches: 58, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
21 2 0.03
22 15 0.26
23 13 0.22
24 28 0.48
ACGTcount: A:0.50, C:0.21, G:0.05, T:0.25
Consensus pattern (24 bp):
TACACCAAAATTTAACAACATATA
Found at i:13724009 original size:24 final size:24
Alignment explanation
Indices: 13723896--13724014 Score: 57
Period size: 24 Copynumber: 5.0 Consensus size: 24
13723886 TATACATACC
* *
13723896 AAATTTAACAGCACT-TTTACACCA
1 AAATTTAACAGCA-TATATACACAA
* *
13723920 AAATTTAACAACATATATACA-AC
1 AAATTTAACAGCATATATACACAA
*** * * * *
13723943 AAA-TGGGCATCATATACATAC-T
1 AAATTTAACAGCATATATACACAA
* * * *
13723965 AAATTGAGCAGCATTTTTACACAA
1 AAATTTAACAGCATATATACACAA
13723989 AAATTTAACAGCATATATACAACAA
1 AAATTTAACAGCATATATAC-ACAA
13724014 A
1 A
13724015 TAGGCAGCAT
Statistics
Matches: 68, Mismatches: 22, Indels: 9
0.69 0.22 0.09
Matches are distributed among these distances:
22 14 0.21
23 16 0.24
24 33 0.49
25 5 0.07
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (24 bp):
AAATTTAACAGCATATATACACAA
Found at i:13734412 original size:3 final size:3
Alignment explanation
Indices: 13734404--13734431 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13734394 AGATAAATTC
13734404 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13734432 AAGACTTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13737237 original size:1 final size:1
Alignment explanation
Indices: 13737233--13737264 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
13737223 CACAAAAATT
13737233 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13737265 CAGATTCAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13740895 original size:3 final size:3
Alignment explanation
Indices: 13740887--13740931 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
13740877 CCTTATTACA
*
13740887 ATT ATT ATT ATT GTT 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
13740932 GCATTTTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:13741878 original size:17 final size:17
Alignment explanation
Indices: 13741849--13741898 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
13741839 TCTCCTTCTC
13741849 CTCCTTCTTCTTCTTATT
1 CTCCTT-TTCTTCTTATT
13741867 CTCCTTTTCTTCTTATT
1 CTCCTTTTCTTCTTATT
*
13741884 CT-TTTTCTCTTCTTA
1 CTCCTTT-TCTTCTTA
13741899 AACCCTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 3 0.10
17 21 0.70
18 6 0.20
ACGTcount: A:0.06, C:0.30, G:0.00, T:0.64
Consensus pattern (17 bp):
CTCCTTTTCTTCTTATT
Found at i:13742994 original size:31 final size:30
Alignment explanation
Indices: 13742955--13743037 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
13742945 CATTTTAATG
13742955 ATAGAGTGACTAAAATTAACAACTTATCTA
1 ATAGAGTGACTAAAATTAACAACTTATCTA
* * * *
13742985 ATAGAAGTGACTCAAATCAATAATTTATCTA
1 ATAG-AGTGACTAAAATTAACAACTTATCTA
* *
13743016 ACATGAGGGACTAAAA-TAACAA
1 ATA-GAGTGACTAAAATTAACAA
13743038 AATTTTGAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
30 8 0.19
31 33 0.79
32 1 0.02
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (30 bp):
ATAGAGTGACTAAAATTAACAACTTATCTA
Found at i:13744049 original size:106 final size:106
Alignment explanation
Indices: 13743862--13744175 Score: 490
Period size: 106 Copynumber: 3.1 Consensus size: 106
13743852 TAAACTCATT
13743862 AAAATTTCTATATCTCATTTTTAAATTGTGGACCTCAAGAAGCATATAACTGGGTTTTAGAATTC
1 AAAATTTCTATATCTC--TTTTAAATTGTGGACCTCAAGAAGCATATAACTGGGTTTTAGAATTC
13743927 GCTCTTATCGTTTAAAAAAAATTAATCCATTAAAATATAATTA
64 GCTCTTATCGTTTAAAAAAAATTAATCCATTAAAATATAATTA
13743970 AAAATTTCTATATCTCTTTTAAATTGTGGACCTCAAGAAGCATATAACTGGGTTTTAGAATTCGC
1 AAAATTTCTATATCTCTTTTAAATTGTGGACCTCAAGAAGCATATAACTGGGTTTTAGAATTCGC
13744035 TCTTATCGTTTAAAAAAAATTAATCCATT-AAA-AT--TT-
66 TCTTATCGTTTAAAAAAAATTAATCCATTAAAATATAATTA
* *
13744071 ---ATATCT-CA--T-TTTTAAATTGTGGACCTCAAGAAGCATATAACTGGGTTTTAGAATTCGC
1 AAAATTTCTATATCTCTTTTAAATTGTGGACCTCAAGAAGCATATAACTGGGTTTTAGAATTCGC
**
13744129 TCTTATCGTTTAAAAAAAATTTTTCCATTAAAATATAATTA
66 TCTTATCGTTTAAAAAAAATTAATCCATTAAAATATAATTA
13744170 AAAATT
1 AAAATT
13744176 ATTTTATATT
Statistics
Matches: 193, Mismatches: 5, Indels: 22
0.88 0.02 0.10
Matches are distributed among these distances:
94 76 0.39
95 4 0.02
96 2 0.01
97 1 0.01
98 7 0.04
102 4 0.02
104 2 0.01
105 3 0.02
106 78 0.40
108 16 0.08
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.39
Consensus pattern (106 bp):
AAAATTTCTATATCTCTTTTAAATTGTGGACCTCAAGAAGCATATAACTGGGTTTTAGAATTCGC
TCTTATCGTTTAAAAAAAATTAATCCATTAAAATATAATTA
Found at i:13744117 original size:94 final size:92
Alignment explanation
Indices: 13743978--13744162 Score: 334
Period size: 94 Copynumber: 2.0 Consensus size: 92
13743968 TAAAAATTTC
13743978 TATATCTCTTTTAAATTGTGGACCTCAAGAAGCATATAACTGGGTTTTAGAATTCGCTCTTATCG
1 TATATCTCTTTTAAATTGTGGACCTCAAGAAGCATATAACTGGGTTTTAGAATTCGCTCTTATCG
13744043 TTTAAAAAAAATTAATCCATTAAAATT
66 TTTAAAAAAAATTAATCCATTAAAATT
13744070 TATATCTCATTTTTAAATTGTGGACCTCAAGAAGCATATAACTGGGTTTTAGAATTCGCTCTTAT
1 TATATCTC--TTTTAAATTGTGGACCTCAAGAAGCATATAACTGGGTTTTAGAATTCGCTCTTAT
**
13744135 CGTTTAAAAAAAATTTTTCCATTAAAAT
64 CGTTTAAAAAAAATTAATCCATTAAAAT
13744163 ATAATTAAAA
Statistics
Matches: 89, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
92 8 0.09
94 81 0.91
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (92 bp):
TATATCTCTTTTAAATTGTGGACCTCAAGAAGCATATAACTGGGTTTTAGAATTCGCTCTTATCG
TTTAAAAAAAATTAATCCATTAAAATT
Found at i:13744589 original size:6 final size:6
Alignment explanation
Indices: 13744578--13744604 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
13744568 CAAAATAATA
13744578 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
13744605 GCACACAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:13744864 original size:18 final size:16
Alignment explanation
Indices: 13744831--13744870 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 16
13744821 TTCTATATAA
13744831 ATTTTACTTTTATTTT
1 ATTTTACTTTTATTTT
13744847 ATTTTACTATTGTATTTT
1 ATTTTACT-TT-TATTTT
13744865 ATTTTA
1 ATTTTA
13744871 ACAAGGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 8 0.36
17 2 0.09
18 12 0.55
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (16 bp):
ATTTTACTTTTATTTT
Found at i:13746234 original size:6 final size:6
Alignment explanation
Indices: 13746223--13746249 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
13746213 CAAAATAATA
13746223 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
13746250 GCACACAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:13746509 original size:18 final size:16
Alignment explanation
Indices: 13746476--13746515 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 16
13746466 TTCTATATAA
13746476 ATTTTACTTTTATTTT
1 ATTTTACTTTTATTTT
13746492 ATTTTACTATTGTATTTT
1 ATTTTACT-TT-TATTTT
13746510 ATTTTA
1 ATTTTA
13746516 ACAAGGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 8 0.36
17 2 0.09
18 12 0.55
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (16 bp):
ATTTTACTTTTATTTT
Found at i:13747793 original size:15 final size:15
Alignment explanation
Indices: 13747773--13747801 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13747763 AACATAATCC
13747773 TCGGCAGAGAATTCA
1 TCGGCAGAGAATTCA
13747788 TCGGCAGAGAATTC
1 TCGGCAGAGAATTC
13747802 TTCTCGAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.21
Consensus pattern (15 bp):
TCGGCAGAGAATTCA
Found at i:13752529 original size:27 final size:27
Alignment explanation
Indices: 13752495--13752547 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
13752485 TTCATTGAAG
*
13752495 TATCTTCATTGCCGTCCATGCATGTAT
1 TATCTTCAATGCCGTCCATGCATGTAT
13752522 TATCTTCAATGCCGTCCATGCATGTA
1 TATCTTCAATGCCGTCCATGCATGTA
13752548 CCTACCAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (27 bp):
TATCTTCAATGCCGTCCATGCATGTAT
Found at i:13752706 original size:3 final size:3
Alignment explanation
Indices: 13752698--13752729 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
13752688 TCTTAATACT
13752698 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
13752730 TAATAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:13753096 original size:22 final size:22
Alignment explanation
Indices: 13753068--13753112 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
13753058 TTGTTTTTTT
13753068 ATATATTTTGGTAAATAAAAAA
1 ATATATTTTGGTAAATAAAAAA
13753090 ATATATTTTGGTAAATAAAAAA
1 ATATATTTTGGTAAATAAAAAA
13753112 A
1 A
13753113 GTTATAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (22 bp):
ATATATTTTGGTAAATAAAAAA
Found at i:13756894 original size:26 final size:24
Alignment explanation
Indices: 13756858--13756942 Score: 79
Period size: 26 Copynumber: 3.5 Consensus size: 24
13756848 TATTATATAA
13756858 TTAAAATAAATAATACACAAAGCAAT
1 TTAAAATAAAT-ATACA-AAAGCAAT
*
13756884 TTAAAATAAATA-ACATATGAGACAAT
1 TTAAAATAAATATACA-A-AAG-CAAT
*
13756910 TTAAAAT-AATATATAAAA--AAT
1 TTAAAATAAATATACAAAAGCAAT
13756931 TTAAAATAAATA
1 TTAAAATAAATA
13756943 ATATGTAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
21 10 0.20
22 4 0.08
24 5 0.10
25 8 0.16
26 24 0.47
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (24 bp):
TTAAAATAAATATACAAAAGCAAT
Found at i:13756966 original size:28 final size:25
Alignment explanation
Indices: 13756786--13757181 Score: 179
Period size: 25 Copynumber: 15.4 Consensus size: 25
13756776 AAAGAAAACG
*
13756786 AAAA-AAATAATATATAGAATAATTT
1 AAAATAAATAATATATA-AAAAATTT
* * * *
13756811 GAAGTAAATAGTATA-AAACAATTT
1 AAAATAAATAATATATAAAAAATTT
* * *
13756835 AAAGTAAATAATATATTATATAA-TT
1 AAAATAAATAATATA-TAAAAAATTT
* * *
13756860 AAAATAAATAATACACAAAGCAATTT
1 AAAATAAATAATATATAAA-AAATTT
* * *
13756886 AAAATAAATAACATATGAGACAATTT
1 AAAATAAATAATATAT-AAAAAATTT
13756912 ---A-AAATAATATATAAAAAATTT
1 AAAATAAATAATATATAAAAAATTT
*
13756933 AAAATAAATAATATGTAAAAAGAAGTTT
1 AAAATAAATAATATAT-AAAA-AA-TTT
* * * *
13756961 CAAATAACTAATATACAAAACAGTTT
1 AAAATAAATAATATATAAAA-AATTT
* *
13756987 AAAAAATAAATGAGGTATATAAAAACAATTC
1 --AAAATAAAT-A-ATATAT-AAAA-AATTT
* *
13757018 AAAATAAATAATATATATAATAGTTT
1 AAAATAAATAATATATA-AAAAATTT
*
13757044 AAAAATAAATAATATAT--ACAA---
1 -AAAATAAATAATATATAAAAAATTT
* * * *
13757065 AAAATAGATAATAGTTTGAAATAGTTT
1 AAAATAAATAATA-TAT-AAAAAATTT
* * * ** *
13757092 AAAATACATGACATATGGAAAACTT
1 AAAATAAATAATATATAAAAAATTT
*
13757117 GAAATAAATAATA-ATAAAATAATTT
1 AAAATAAATAATATATAAAA-AATTT
13757142 AAAATAAATAATATATAAGAAAAAGGTTT
1 AAAATAAATAATATAT-A-AAAAA--TTT
13757171 AAAATAAATAA
1 AAAATAAATAA
13757182 ATGAATAACA
Statistics
Matches: 278, Mismatches: 60, Indels: 62
0.69 0.15 0.16
Matches are distributed among these distances:
20 12 0.04
21 9 0.03
22 10 0.04
23 1 0.00
24 31 0.11
25 59 0.21
26 49 0.18
27 45 0.16
28 26 0.09
29 24 0.09
30 4 0.01
31 8 0.03
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (25 bp):
AAAATAAATAATATATAAAAAATTT
Found at i:13757067 original size:56 final size:53
Alignment explanation
Indices: 13756913--13757068 Score: 154
Period size: 56 Copynumber: 2.8 Consensus size: 53
13756903 AGACAATTTA
* * *
13756913 AAATAATATATAAAAAATTT-AAAATAAATAATATGTAAAAAGAAGTTTCAAAT
1 AAATAATATATAAAAAGTTTAAAAATAAATAATATATAAAAA-AAGATTCAAAT
* * * *
13756966 AACTAATATACAAAACAGTTTAAAAAATAAATGAGGTATATAAAAACA-ATTCAAAAT
1 AAATAATATATAAAA-AGTTT-AAAAATAAAT-A-ATATATAAAAAAAGATTC-AAAT
*
13757023 AAATAATATATATAATAGTTTAAAAATAAATAATATATACAAAAAA
1 AAATAATATATA-AAAAGTTTAAAAATAAATAATATATA-AAAAAA
13757069 TAGATAATAG
Statistics
Matches: 83, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
53 13 0.16
54 10 0.12
55 6 0.07
56 22 0.27
57 21 0.25
58 11 0.13
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.28
Consensus pattern (53 bp):
AAATAATATATAAAAAGTTTAAAAATAAATAATATATAAAAAAAGATTCAAAT
Found at i:13757068 original size:57 final size:53
Alignment explanation
Indices: 13756913--13757068 Score: 145
Period size: 57 Copynumber: 2.8 Consensus size: 53
13756903 AGACAATTTA
* * **
13756913 AAATAATATATAAAAAATTT-AAAATAAATAATATGTAAAAAGAAGTTTCAAAT
1 AAATAATATATAAAAAGTTTAAAAATAAATAATATATAAAAA-AAAATTCAAAT
* * * *
13756966 AACTAATATACAAAACAGTTTAAAAAATAAATGAGGTATAT-AAAAACAATTCAAAAT
1 AAATAATATATAAAA-AGTTT-AAAAATAAAT-A-ATATATAAAAAAAAATTC-AAAT
* *
13757023 AAATAATATATATAATAGTTTAAAAATAAATAATATATACAAAAAA
1 AAATAATATATA-AAAAGTTTAAAAATAAATAATATATAAAAAAAA
13757069 TAGATAATAG
Statistics
Matches: 81, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
53 13 0.16
54 9 0.11
55 6 0.07
56 23 0.28
57 24 0.30
58 6 0.07
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.28
Consensus pattern (53 bp):
AAATAATATATAAAAAGTTTAAAAATAAATAATATATAAAAAAAAATTCAAAT
Found at i:13757150 original size:29 final size:29
Alignment explanation
Indices: 13757118--13757189 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 29
13757108 GGAAAACTTG
*
13757118 AAATAAATAATAATAAAATA-ATTTAAAAT
1 AAATAAATAATAAGAAAA-AGATTTAAAAT
*
13757147 AAAT-AATATATAAGAAAAAGGTTTAAAAT
1 AAATAAATA-ATAAGAAAAAGATTTAAAAT
13757176 AAATAAATGAATAA
1 AAATAAAT-AATAA
13757190 CAAATTCGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
28 5 0.14
29 24 0.65
30 7 0.19
31 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (29 bp):
AAATAAATAATAAGAAAAAGATTTAAAAT
Found at i:13757436 original size:7 final size:7
Alignment explanation
Indices: 13757424--13757451 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
13757414 TGATTAAATT
13757424 AAATAAA
1 AAATAAA
13757431 AAATAAA
1 AAATAAA
13757438 AAATAAA
1 AAATAAA
13757445 AAATAAA
1 AAATAAA
13757452 TCAAAGGGAC
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:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAATAAA
Found at i:13758683 original size:44 final size:44
Alignment explanation
Indices: 13758635--13759296 Score: 248
Period size: 44 Copynumber: 14.6 Consensus size: 44
13758625 GTTTCAATTC
* *
13758635 GCTCCACTGCAACTTCAGAGAGATAGGATTAGTAGCTTTAATTT
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTTAATCT
* * * * * * *
13758679 GCTCCACTGTAACTTTAGGGAGATAAGATTGGTATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTTAATCT
** * *
13758723 GCTCCACCACAACTTCAGGGAGATAAGG-CTAGTGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGAT-AGGATTAGTAGCTTTAATCT
* * *
13758767 GCTCCACTGTAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGAT-AG----G-----ATTAGTAGCTTTAATCT
* * * * * * *
13758821 GTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAG-TAGCTTTAATCT
* * * * * * *
13758866 ACTCCACTGCAACTTCAAGGAGATAAGACTAGTAACTTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTTAATCT
* * * * * *
13758910 ACTTCACTACAACTTCAGGGAGATTAGG-TT--T-GATATGATCT
1 GCTCCACTGCAACTTCAGGGAGA-TAGGATTAGTAGCTTTAATCT
* * * *
13758951 GCTCTATTGCAACTTCAGAGAGATAAGATCTGTAATTTA-TAGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGAT-AG----G--A-TTAGTAGCTTTAATCT
* * * * * * * *
13759002 GTTTCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAG-TAGCTTTAATCT
* * * * * *
13759047 GCTCCACTGTAACTTCAGGGAGATAAGACTAGTAACTTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTTAATCT
* * * *
13759091 GCTCCACTGCAACTTCAAGGAGATAATGATT-G-A-C-ATGATCT
1 GCTCCACTGCAACTTCAGGGAGAT-AGGATTAGTAGCTTTAATCT
* * * * *
13759132 GCTCTACTACAACTTTAGAGAGATAAGATCTGTAATTTA-TAGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGAT-AG----G--A-TTAGTAGCTTTAATCT
* * * * * *
13759183 GTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAG-TAGCTTTAATCT
* * * * * * *
13759228 TCTCCACTGCAACTTCAAGGAGATAAGACTAGTAACTTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTTAATCT
* * *
13759272 ACTCCACTGTAACTTCAAGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
13759297 AGGTTTGATA
Statistics
Matches: 457, Mismatches: 121, Indels: 80
0.69 0.18 0.12
Matches are distributed among these distances:
40 1 0.00
41 47 0.10
42 2 0.00
43 5 0.01
44 189 0.41
45 119 0.26
46 2 0.00
47 1 0.00
48 3 0.01
49 4 0.01
50 4 0.01
51 46 0.10
53 1 0.00
54 33 0.07
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTTAATCT
Done.