Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009461.1 Hibiscus syriacus cultivar Beakdansim tig00113724_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2346588
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 12
Found at i:626442 original size:18 final size:18
Alignment explanation
Indices: 626419--626454 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
626409 CAATCAGGTC
* *
626419 ATCAACATGTTCTTGCTG
1 ATCAACAAGTTATTGCTG
626437 ATCAACAAGTTATTGCTG
1 ATCAACAAGTTATTGCTG
626455 CACTGGTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (18 bp):
ATCAACAAGTTATTGCTG
Found at i:626734 original size:20 final size:21
Alignment explanation
Indices: 626711--626808 Score: 73
Period size: 21 Copynumber: 4.8 Consensus size: 21
626701 GAACTCTAAT
626711 TTCGCAACAC-AGTTTCCAAA
1 TTCGCAACACGAGTTTCCAAA
*
626731 TTCGCAACTC-AGTTTCTGC-AA
1 TTCGCAACACGAGTTTC--CAAA
* *
626752 -TCGCAACGCGATTTTCCAAA
1 TTCGCAACACGAGTTTCCAAA
* *
626772 TTCGCTACACGAAATTT-CAAA
1 TTCGCAACACG-AGTTTCCAAA
*
626793 TTCGCAACTCGA-TTTC
1 TTCGCAACACGAGTTTC
626809 TGAATTCGAA
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
19 4 0.06
20 26 0.41
21 28 0.44
22 5 0.08
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.30
Consensus pattern (21 bp):
TTCGCAACACGAGTTTCCAAA
Found at i:626776 original size:21 final size:21
Alignment explanation
Indices: 626711--626807 Score: 69
Period size: 20 Copynumber: 4.7 Consensus size: 21
626701 GAACTCTAAT
*
626711 TTCGCAACAC-AGTTTCCAAA
1 TTCGCAACACGATTTTCCAAA
* *
626731 TTCGCAACTC-AGTTTCTGC-AA
1 TTCGCAACACGA-TTT-TCCAAA
*
626752 -TCGCAACGCGATTTTCCAAA
1 TTCGCAACACGATTTTCCAAA
* *
626772 TTCGCTACACGAAATTT-CAAA
1 TTCGCAACACG-ATTTTCCAAA
*
626793 TTCGCAACTCGATTT
1 TTCGCAACACGATTT
626808 CTGAATTCGA
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
19 2 0.03
20 26 0.43
21 26 0.43
22 6 0.10
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (21 bp):
TTCGCAACACGATTTTCCAAA
Found at i:626896 original size:40 final size:40
Alignment explanation
Indices: 626835--626942 Score: 117
Period size: 40 Copynumber: 2.7 Consensus size: 40
626825 AATATCTTTT
* ** *
626835 TCGCAACACAAGTTTCCTTTTCGCAACAAGATTTTCTAAA
1 TCGCAACACAAATTTTATTTTCGCAACAAGATTTTCGAAA
* ** *
626875 TCGCAACACAAATTTTGTTTTCGCAACTCGATTTTCGAAT
1 TCGCAACACAAATTTTATTTTCGCAACAAGATTTTCGAAA
* * *
626915 TTGCAACACGAATTTTAATTTCGCAACA
1 TCGCAACACAAATTTTATTTTCGCAACA
626943 GCTTTTATTT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (40 bp):
TCGCAACACAAATTTTATTTTCGCAACAAGATTTTCGAAA
Found at i:626898 original size:20 final size:20
Alignment explanation
Indices: 626832--626901 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
626822 GCGAATATCT
* *
626832 TTTTCGCAACACAAGTTTCC
1 TTTTCGCAACACAAATTTTC
*
626852 TTTTCGCAACA-AGATTTTC
1 TTTTCGCAACACAAATTTTC
** *
626871 TAAATCGCAACACAAATTTTG
1 T-TTTCGCAACACAAATTTTC
626892 TTTTCGCAAC
1 TTTTCGCAAC
626902 TCGATTTTCG
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 6 0.15
20 26 0.67
21 7 0.18
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (20 bp):
TTTTCGCAACACAAATTTTC
Found at i:626940 original size:20 final size:20
Alignment explanation
Indices: 626853--626942 Score: 69
Period size: 20 Copynumber: 4.5 Consensus size: 20
626843 CAAGTTTCCT
* *
626853 TTTCGCAACAAGATTTTCTAA
1 TTTCGCAACACGAATTT-TAA
* * **
626874 -ATCGCAACACAAATTTTGT
1 TTTCGCAACACGAATTTTAA
*
626893 TTTCGCAACTCG-ATTTTCGAA
1 TTTCGCAACACGAATTTT--AA
626914 TTT-GCAACACGAATTTTAA
1 TTTCGCAACACGAATTTTAA
626933 TTTCGCAACA
1 TTTCGCAACA
626943 GCTTTTATTT
Statistics
Matches: 52, Mismatches: 12, Indels: 11
0.69 0.16 0.15
Matches are distributed among these distances:
19 11 0.21
20 33 0.63
21 8 0.15
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (20 bp):
TTTCGCAACACGAATTTTAA
Found at i:627215 original size:17 final size:17
Alignment explanation
Indices: 627193--627230 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
627183 TTTTTCTCTA
627193 AGTTAGTGATGATATCT
1 AGTTAGTGATGATATCT
627210 AGTTAGTGATGATATCT
1 AGTTAGTGATGATATCT
627227 AGTT
1 AGTT
627231 TATAGCTCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.24, T:0.42
Consensus pattern (17 bp):
AGTTAGTGATGATATCT
Found at i:627921 original size:24 final size:24
Alignment explanation
Indices: 627894--627947 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
627884 GTATTCAAAA
627894 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
627918 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
627942 TTTGAT
1 TTTGAT
627948 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:630477 original size:20 final size:20
Alignment explanation
Indices: 630452--630509 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
630442 GTTTTCCTTG
630452 AATTCACAACGCGAAAGTCA
1 AATTCACAACGCGAAAGTCA
***
630472 AATTCACGTTGCGAAAGTCA
1 AATTCACAACGCGAAAGTCA
*
630492 AATTCGA-AACACGAAAGT
1 AATTC-ACAACGCGAAAGT
630510 TTCGCAACGC
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (20 bp):
AATTCACAACGCGAAAGTCA
Found at i:630534 original size:20 final size:20
Alignment explanation
Indices: 630509--630547 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
630499 AACACGAAAG
*
630509 TTTCGCAACGCGAAAATCAA
1 TTTCGCAACGCAAAAATCAA
*
630529 TTTCGCAGCGCAAAAATCA
1 TTTCGCAACGCAAAAATCA
630548 CAACGCGAAT
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:0.26, G:0.15, T:0.21
Consensus pattern (20 bp):
TTTCGCAACGCAAAAATCAA
Found at i:630648 original size:16 final size:16
Alignment explanation
Indices: 630627--630661 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
630617 CAGATTGTTC
* *
630627 ATTAAACAACAAATCA
1 ATTAAACAAAAAAACA
630643 ATTAAACAAAAAAACA
1 ATTAAACAAAAAAACA
630659 ATT
1 ATT
630662 CTTATTTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.20
Consensus pattern (16 bp):
ATTAAACAAAAAAACA
Found at i:632086 original size:21 final size:21
Alignment explanation
Indices: 632060--632219 Score: 212
Period size: 21 Copynumber: 7.6 Consensus size: 21
632050 GTGAATCAGG
*
632060 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGATGGGAGGGGC
* *
632081 CTCTTGAACGATGAGAGGGAC
1 CTCTTGAACGATGGGAGGGGC
*
632102 CTCTTGAATGATGGGAGGGGC
1 CTCTTGAACGATGGGAGGGGC
* *
632123 CTTTTGAACAATGGGAGGGGC
1 CTCTTGAACGATGGGAGGGGC
* * *
632144 TTCTTGAACGATAGAAGGGGC
1 CTCTTGAACGATGGGAGGGGC
632165 CTCTTGAACGATGGGAGGGGC
1 CTCTTGAACGATGGGAGGGGC
* *
632186 CTCTTGAACGATAGGAGGAGC
1 CTCTTGAACGATGGGAGGGGC
*
632207 CTCTTGAATGATG
1 CTCTTGAACGATG
632220 ACAGGTGAAT
Statistics
Matches: 118, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 118 1.00
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGGGGC
Found at i:632657 original size:21 final size:21
Alignment explanation
Indices: 632633--632672 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
632623 GTCGTCACGT
*
632633 AAAGTACCGACCTCATCACAC
1 AAAGCACCGACCTCATCACAC
*
632654 AAAGCACTGACCTCATCAC
1 AAAGCACCGACCTCATCAC
632673 GTAACTCCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAGCACCGACCTCATCACAC
Found at i:634368 original size:20 final size:19
Alignment explanation
Indices: 634340--634406 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 19
634330 TTTTGAAACT
* *
634340 TAAATTCGCAACACGAAAA
1 TAAAATCGCAACGCGAAAA
*
634359 TGAAAATCGCAGCGCGAAAA
1 T-AAAATCGCAACGCGAAAA
*
634379 TAAAAATCGCAACGCGAAAC
1 T-AAAATCGCAACGCGAAAA
634399 TAAAATCG
1 TAAAATCG
634407 AATTGCGATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.20
20 33 0.80
ACGTcount: A:0.49, C:0.21, G:0.16, T:0.13
Consensus pattern (19 bp):
TAAAATCGCAACGCGAAAA
Found at i:634406 original size:19 final size:20
Alignment explanation
Indices: 634345--634403 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
634335 AAACTTAAAT
* *
634345 TCGCAACACGAAAATGAAAA
1 TCGCAACGCGAAAATAAAAA
*
634365 TCGCAGCGCGAAAATAAAAA
1 TCGCAACGCGAAAATAAAAA
*
634385 TCGCAACGCGAAACTAAAA
1 TCGCAACGCGAAAATAAAA
634404 TCGAATTGCG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.51, C:0.22, G:0.17, T:0.10
Consensus pattern (20 bp):
TCGCAACGCGAAAATAAAAA
Found at i:634433 original size:20 final size:20
Alignment explanation
Indices: 634408--634459 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
634398 CTAAAATCGA
*
634408 ATTGCGATTTTCATTTTCGT
1 ATTGCGATTTTCATTTTCAT
*
634428 ATTGCGAATTTCATTTTCAT
1 ATTGCGATTTTCATTTTCAT
*
634448 GTTGCGAATTTT
1 ATTGCG-ATTTT
634460 AGTTTCAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.19, C:0.13, G:0.15, T:0.52
Consensus pattern (20 bp):
ATTGCGATTTTCATTTTCAT
Found at i:634465 original size:20 final size:20
Alignment explanation
Indices: 634409--634466 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
634399 TAAAATCGAA
* * * *
634409 TTGCGATTTTCATTTTCGTA
1 TTGCGAATTTCAGTTTCATG
*
634429 TTGCGAATTTCATTTTCATG
1 TTGCGAATTTCAGTTTCATG
*
634449 TTGCGAATTTTAGTTTCA
1 TTGCGAATTTCAGTTTCA
634467 AAAACTATTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.52
Consensus pattern (20 bp):
TTGCGAATTTCAGTTTCATG
Found at i:634811 original size:22 final size:22
Alignment explanation
Indices: 634777--634819 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
634767 CTCTGGGGAG
*
634777 TCGTCGGATATGGGGACGGATT
1 TCGTCGGAGATGGGGACGGATT
* *
634799 TCGTTGGAGATGGGGATGGAT
1 TCGTCGGAGATGGGGACGGAT
634820 GTTGCCATAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.09, G:0.44, T:0.28
Consensus pattern (22 bp):
TCGTCGGAGATGGGGACGGATT
Found at i:634945 original size:19 final size:20
Alignment explanation
Indices: 634923--634960 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
634913 AATATTGTGT
634923 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
**
634942 TTCGCGTTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
634961 CGCGCTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:635009 original size:20 final size:20
Alignment explanation
Indices: 634986--635035 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
634976 TGACTTCTAT
634986 GTTGCGAATTACAAATTCGC
1 GTTGCGAATTACAAATTCGC
* * *
635006 GTTGTGATTTACATATTCGC
1 GTTGCGAATTACAAATTCGC
635026 GTTGCGAATT
1 GTTGCGAATT
635036 TGAAAAATCG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (20 bp):
GTTGCGAATTACAAATTCGC
Found at i:644313 original size:15 final size:15
Alignment explanation
Indices: 644295--644325 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
644285 AAATTCTAAA
644295 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
644310 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
644325 T
1 T
644326 CTATTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:649212 original size:16 final size:16
Alignment explanation
Indices: 649191--649253 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 16
649181 AGTAAAAACA
649191 ATAAAAATATATACAT
1 ATAAAAATATATACAT
*
649207 AT-AAAATAT-TAGAT
1 ATAAAAATATATACAT
* * *
649221 AGAAAAATAAATAAAT
1 ATAAAAATATATACAT
649237 A-AATAAATATATACAT
1 ATAA-AAATATATACAT
649253 A
1 A
649254 CTAACTAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
14 5 0.13
15 15 0.39
16 18 0.47
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (16 bp):
ATAAAAATATATACAT
Found at i:649232 original size:4 final size:4
Alignment explanation
Indices: 649225--649309 Score: 57
Period size: 4 Copynumber: 20.8 Consensus size: 4
649215 TTAGATAGAA
* * * *
649225 AAAT AAAT AAAT AAAT AAAT ATAT ACAT -ACT AACT AAAT AAAT AAAAGT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAA-T
** *
649274 AAGG AAA- AAAT AAAT AAAT ATAGAT AAAT AAGT AAA
1 AAAT AAAT AAAT AAAT AAAT A-A-AT AAAT AAAT AAA
649310 ATAGATATAG
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
3 4 0.06
4 50 0.77
5 7 0.11
6 4 0.06
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:649315 original size:17 final size:18
Alignment explanation
Indices: 649219--649316 Score: 62
Period size: 18 Copynumber: 5.4 Consensus size: 18
649209 AAAATATTAG
*
649219 ATAGAAAAATAAATAAAT
1 ATAGATAAATAAATAAAT
* *
649237 A-A-ATAAATATATACAT
1 ATAGATAAATAAATAAAT
649253 ACTA-ACTAAATAAATAAA-
1 A-TAGA-TAAATAAATAAAT
*
649271 AGTAAGGAAAAAATAAATAAAT
1 A-T-A-G-ATAAATAAATAAAT
*
649293 ATAGATAAATAAGTAAA-
1 ATAGATAAATAAATAAAT
649310 ATAGATA
1 ATAGATA
649317 TAGAGAAAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 17
0.71 0.10 0.19
Matches are distributed among these distances:
16 12 0.19
17 8 0.13
18 16 0.25
19 12 0.19
20 1 0.02
21 12 0.19
22 2 0.03
ACGTcount: A:0.66, C:0.03, G:0.07, T:0.23
Consensus pattern (18 bp):
ATAGATAAATAAATAAAT
Found at i:651114 original size:37 final size:36
Alignment explanation
Indices: 651073--651152 Score: 88
Period size: 37 Copynumber: 2.2 Consensus size: 36
651063 AAGATGATGC
** *
651073 TTCAAGAGAAGTTGTCTCAAAAGAGACAGAACTATGT
1 TTCAAGAGAAACTGTCTCAAAAGAGAC-GAAATATGT
* ** *
651110 TTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTGT
1 TTCAAGAGAAACTGTCTCAAAAGAGACGAAATATGT
651146 TTCAAGA
1 TTCAAGA
651153 AAAATAGATT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.25
Consensus pattern (36 bp):
TTCAAGAGAAACTGTCTCAAAAGAGACGAAATATGT
Found at i:651230 original size:65 final size:65
Alignment explanation
Indices: 651105--651288 Score: 221
Period size: 65 Copynumber: 2.8 Consensus size: 65
651095 GAGACAGAAC
* **
651105 TATGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGAAAAATAGATTCAAAGAT
1 TATGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATAGATTCAAAG-T
651170 T
65 T
* * * * *
651171 T-TGTTTCAAGGGAAACTGTCTTAAGAGAGATAAAATTTGTTTCAAGGGAAAT-GTTTTCAATGT
1 TATGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATAG-ATTCAAAGT
651234 T
65 T
*
651235 TATGTTTC-AGGAGAAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAA
1 TATGTTTCAAGG-G-AAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAA
651289 CTGTCTCAAG
Statistics
Matches: 101, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
64 7 0.07
65 58 0.57
66 20 0.20
67 16 0.16
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.32
Consensus pattern (65 bp):
TATGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATAGATTCAAAGTT
Found at i:651284 original size:103 final size:103
Alignment explanation
Indices: 651163--651808 Score: 1044
Period size: 103 Copynumber: 6.3 Consensus size: 103
651153 AAAATAGATT
* * **
651163 CAAAGATTTTGTTTCAAGGGAAACTGTCTTAAGAGAGATAAAATTTGTTTCAAGGGAAATGTTTT
1 CAAA-ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTT
* *
651228 CAATGTTTATGTTTCAGGAGAAAACTATCTCAAGGGAGA
65 CAATGTTTATGTTTCAAGAGAAAACTGTCTCAAGGGAGA
* * *
651267 CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTATTTAAAGGGAAATGTTTTC
1 CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTC
651332 AATGTTTATGTTTCAAGAG-AAACTGTCTCAAGGGAGA
66 AATGTTTATGTTTCAAGAGAAAACTGTCTCAAGGGAGA
* **
651369 CAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGGAATTCATTTCAAGGGAAATGTTTTC
1 CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTC
* *
651434 AATGTTTATGTTTCAAGAGAAAATTGTCACAAGGGAGA
66 AATGTTTATGTTTCAAGAGAAAACTGTCTCAAGGGAGA
* *
651472 AAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTC
1 CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTC
651537 AATGTTTATGTTTCAAGAGAAAACTGTCTCAAGGGAGA
66 AATGTTTATGTTTCAAGAGAAAACTGTCTCAAGGGAGA
*** * *
651575 CAAAATTTTGTTTCAAAAAAAACTATCTCAAGAGAGACAAAATTCATTTCAATGGAAATGTTTTC
1 CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTC
*
651640 AATGTTTATGTTTCAAGAG-AAACTGTCTTAAGGGAGA
66 AATGTTTATGTTTCAAGAGAAAACTGTCTCAAGGGAGA
*
651677 CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTC
1 CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTC
651742 AATGTTTATGTTTCAAGAGAAAACTGTCTCAAGGGAGA
66 AATGTTTATGTTTCAAGAGAAAACTGTCTCAAGGGAGA
* *
651780 CAAAATTTTATTTCAAGGGGAACTGTCTC
1 CAAAATTTTGTTTCAAGGGAAACTGTCTC
651809 GGGCGAGATA
Statistics
Matches: 505, Mismatches: 35, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
102 192 0.38
103 309 0.61
104 4 0.01
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (103 bp):
CAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTC
AATGTTTATGTTTCAAGAGAAAACTGTCTCAAGGGAGA
Found at i:651437 original size:205 final size:206
Alignment explanation
Indices: 651163--651808 Score: 1053
Period size: 205 Copynumber: 3.1 Consensus size: 206
651153 AAAATAGATT
* * * **
651163 CAAAGATTTTGTTTCAAGGGAAACTGTCTTAAGAGAGATAAAATTTGTTTCAAGGGAAATGTTTT
1 CAAA-ATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTT
* *
651228 CAATGTTTATGTTTCAGGAGAAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTGT
65 CAATGTTTATGTTTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTGT
* *
651293 CTCAAGAGAGACGAAATTTATTTAAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAG-AAACTG
130 CTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAAACTG
651357 TCTCAAGGGAGA
195 TCTCAAGGGAGA
**
651369 CAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGGAATTCATTTCAAGGGAAATGTTTTC
1 CAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTC
* * * *
651434 AATGTTTATGTTTCAAGAGAAAATTGTCACAAGGGAGAAAAAATTTTGTTTCAAGGGAAACTATC
66 AATGTTTATGTTTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTGTC
*
651499 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAAACTGT
131 TCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAAACTGT
651564 CTCAAGGGAGA
196 CTCAAGGGAGA
* * * *
651575 CAAAATTTTGTTTCAAAAAAAACTATCTCAAGAGAGACAAAATTCATTTCAATGGAAATGTTTTC
1 CAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTC
*
651640 AATGTTTATGTTTCAAGAG-AAACTGTCTTAAGGGAGACAAAATTTTGTTTCAAGGGAAACTGTC
66 AATGTTTATGTTTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTGTC
651704 TCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAAACTGT
131 TCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAAACTGT
651769 CTCAAGGGAGA
196 CTCAAGGGAGA
* * *
651780 CAAAATTTTATTTCAAGGGGAACTGTCTC
1 CAAAATTTTGTTTCAAGAGAAACTGTCTC
651809 GGGCGAGATA
Statistics
Matches: 405, Mismatches: 34, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
205 305 0.75
206 100 0.25
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (206 bp):
CAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTC
AATGTTTATGTTTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTGTC
TCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAAACTGT
CTCAAGGGAGA
Found at i:651726 original size:308 final size:308
Alignment explanation
Indices: 651168--651808 Score: 1075
Period size: 308 Copynumber: 2.1 Consensus size: 308
651158 AGATTCAAAG
* * **
651168 ATTTTGTTTCAAGGGAAACTGTCTTAAGAGAGATAAAATTTGTTTCAAGGGAAATGTTTTCAATG
1 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATG
* *** *
651233 TTTATGTTTCAGGAGAAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTGTCTCAA
66 TTTATGTTTCAAGAGAAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAAAAAAACTATCTCAA
* *
651298 GAGAGACGAAATTTATTTAAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAA
131 GAGAGACAAAATTCATTTAAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAA
*
651363 GGGAGACAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGGAATTCATTTCAAGGGAAAT
196 GGGAGACAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAAT
*
651428 GTTTTCAATGTTTATGTTTCAAGAGAAAATTGTCACAAGGGAGAAAAA
261 GTTTTCAATGTTTATGTTTCAAGAGAAAACTGTCACAAGGGAGAAAAA
*
651476 ATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATG
1 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATG
*
651541 TTTATGTTTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAAAAAAACTATCTCAA
66 TTTATGTTTCAAGAGAAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAAAAAAACTATCTCAA
* * *
651606 GAGAGACAAAATTCATTTCAATGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTTAA
131 GAGAGACAAAATTCATTTAAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAA
*
651671 GGGAGACAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAAT
196 GGGAGACAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAAT
* *
651736 GTTTTCAATGTTTATGTTTCAAGAGAAAACTGTCTCAAGGGAGACAAA
261 GTTTTCAATGTTTATGTTTCAAGAGAAAACTGTCACAAGGGAGAAAAA
* *
651784 ATTTTATTTCAAGGGGAACTGTCTC
1 ATTTTGTTTCAAGGGAAACTGTCTC
651809 GGGCGAGATA
Statistics
Matches: 309, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
308 309 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.32
Consensus pattern (308 bp):
ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATG
TTTATGTTTCAAGAGAAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAAAAAAACTATCTCAA
GAGAGACAAAATTCATTTAAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAA
GGGAGACAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAAT
GTTTTCAATGTTTATGTTTCAAGAGAAAACTGTCACAAGGGAGAAAAA
Found at i:652012 original size:72 final size:72
Alignment explanation
Indices: 651839--652132 Score: 346
Period size: 72 Copynumber: 4.2 Consensus size: 72
651829 TAAAAACAGT
* * *
651839 CTTGAGTGAAATGAAATGCCTTCTTTTGAGTGAAAACGGTCTCAAGCGAGACAAA-TCTTGTTTT
1 CTTGAGTGAAAT-AAAT--CTTCTTTCGAGT-AAAACAGTCTCAAGTGAGACAAAGTC-TGTTTT
651903 AAGAAAA--AATA
61 AAGAAAAGTAA-A
* *
651914 -TTGAGTGAAATAAATCTTCTTTCGAGTAAAACAGTCTCAAGTGAGACAAAGTCTATTTTTAGAA
1 CTTGAGTGAAATAAATCTTCTTTCGAGTAAAACAGTCTCAAGTGAGACAAAGTCTGTTTTAAGAA
*
651978 AAGCAAA
66 AAGTAAA
* *
651985 CTTGAGTGAAATAAATCTTCTTTCGAGTAAAACAATCTCAAGTGAGACAAAATCTGTTTTAAGAA
1 CTTGAGTGAAATAAATCTTCTTTCGAGTAAAACAGTCTCAAGTGAGACAAAGTCTGTTTTAAGAA
652050 AAGTAAA
66 AAGTAAA
*
652057 CTTGAGTGAAATAAA-------TC---TAAAAGAGTCTCAAGTGAGACAAAGTCTGTTTTAAGAA
1 CTTGAGTGAAATAAATCTTCTTTCGAGTAAAACAGTCTCAAGTGAGACAAAGTCTGTTTTAAGAA
652112 AAGTAAA
66 AAGTAAA
*
652119 CTTGAGTGAGATAA
1 CTTGAGTGAAATAA
652133 TCATCTGCAT
Statistics
Matches: 201, Mismatches: 14, Indels: 21
0.85 0.06 0.09
Matches are distributed among these distances:
62 55 0.27
65 2 0.01
70 32 0.16
71 14 0.07
72 83 0.41
73 4 0.02
74 11 0.05
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (72 bp):
CTTGAGTGAAATAAATCTTCTTTCGAGTAAAACAGTCTCAAGTGAGACAAAGTCTGTTTTAAGAA
AAGTAAA
Found at i:653427 original size:83 final size:88
Alignment explanation
Indices: 653308--653527 Score: 265
Period size: 95 Copynumber: 2.5 Consensus size: 88
653298 GCTAGCTGAA
* *
653308 ATCCATAAAGTC-GGGTGTTTTACCAATTGCTCTAGAGGGACAGC-TTA-ATAT-GTA-AAT-AC
1 ATCCATAAAGCCGGGGTGTTTAACCAATTGCTCTAGAGGGACAGCTTTATATATAGTATAATCAC
* *
653367 CTTTATCAGGTTAGCTGAATCTT
66 CTTTATCAGGCTAGCTGAATATT
* *
653390 ATCCATAAAGCCGGGGCGTTTAACCAATTGC-CTTAGAGGGACAGCTCAAGCTTTATTGTATAGT
1 ATCCATAAAGCCGGGGTGTTTAACCAATTGCTC-TAGAGGG--A---C-AGCTTTA-TATATAGT
653454 ATAATCACCTTTATCAGGCTAGCTGAATATT
58 ATAATCACCTTTATCAGGCTAGCTGAATATT
653485 ATCCATAAAGCCGGGGTGTTTAACCAATTGCTCTAGAGGGACA
1 ATCCATAAAGCCGGGGTGTTTAACCAATTGCTCTAGAGGGACA
653528 ACTCAAGTTT
Statistics
Matches: 116, Mismatches: 7, Indels: 23
0.79 0.05 0.16
Matches are distributed among these distances:
82 12 0.10
83 23 0.20
85 1 0.01
88 1 0.01
89 4 0.03
90 4 0.03
92 3 0.03
93 4 0.03
94 3 0.03
95 60 0.52
96 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (88 bp):
ATCCATAAAGCCGGGGTGTTTAACCAATTGCTCTAGAGGGACAGCTTTATATATAGTATAATCAC
CTTTATCAGGCTAGCTGAATATT
Found at i:653533 original size:95 final size:95
Alignment explanation
Indices: 653365--653546 Score: 303
Period size: 95 Copynumber: 1.9 Consensus size: 95
653355 ATATGTAAAT
* *
653365 ACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGG
*
653430 ACAGCTCAAGCTTTATTGTATAGTATAATC
66 ACAACTCAAGCTTTATTGTATAGTATAATC
*
653460 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGTGTTTAACCAATTG-CTCTAGAGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCT-TAGAGG
*
653524 GACAACTCAAGTTTTATTGTATA
65 GACAACTCAAGCTTTATTGTATA
653547 TAAATAATAT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
94 2 0.02
95 79 0.98
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (95 bp):
ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGG
ACAACTCAAGCTTTATTGTATAGTATAATC
Found at i:657975 original size:16 final size:16
Alignment explanation
Indices: 657954--657984 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
657944 AATAATAACA
657954 AATAATAAAAAATAAG
1 AATAATAAAAAATAAG
*
657970 AATAATAAATAATAA
1 AATAATAAAAAATAA
657985 AAATGTATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AATAATAAAAAATAAG
Found at i:659175 original size:20 final size:20
Alignment explanation
Indices: 659146--659189 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
659136 TCCAATTTCG
659146 CAACGCGAATACGTAAATCA
1 CAACGCGAATACGTAAATCA
* ** *
659166 CAACGTGAATTTGTAAATCG
1 CAACGCGAATACGTAAATCA
659186 CAAC
1 CAAC
659190 ACAGAAGTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (20 bp):
CAACGCGAATACGTAAATCA
Found at i:659211 original size:20 final size:20
Alignment explanation
Indices: 659183--659381 Score: 162
Period size: 20 Copynumber: 10.0 Consensus size: 20
659173 AATTTGTAAA
659183 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
* *
659203 TCACAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
659223 TCGCAACACA-AAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
**
659242 TCGCAATGCA-ATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
*
659262 TTGCAACAC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
* * *
659282 TCGCAACGCCA-TATTCAAAT
1 TCGCAAC-ACAGAAGTCAAAT
* *
659302 TCGCAACATAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
659322 TCGCAACA-TGAATTTGT-AAA-
1 TCGCAACACAGAA---GTCAAAT
*
659342 TCACAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
659362 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
659382 GTTTTTACGC
Statistics
Matches: 145, Mismatches: 22, Indels: 24
0.76 0.12 0.13
Matches are distributed among these distances:
18 2 0.01
19 26 0.18
20 108 0.74
21 7 0.05
22 2 0.01
ACGTcount: A:0.44, C:0.23, G:0.13, T:0.21
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:659378 original size:60 final size:59
Alignment explanation
Indices: 659195--659381 Score: 180
Period size: 60 Copynumber: 3.1 Consensus size: 59
659185 GCAACACAGA
* * * * *
659195 AGTCAAATTCACAACACAAAAGTCAAATTCGCAACACAAAGTCAAATTCGCAATGCAAT
1 AGTCAAATTCGCAACACGATAGTCAAATTCACAACACAAAGTCAAATTCGCAACGCAAT
* * * * * ** *
659254 AGTCAAATTTGCAACACGATAGTCAAATTCGCAACGCCATATTCAAATTCGCAACATAAA
1 AGTCAAATTCGCAACACGATAGTCAAATTCACAAC-ACAAAGTCAAATTCGCAACGCAAT
* * *
659314 AGTCAAATTCGCAACATGAATTTGT-AAA-TCACAACACAGAAGTCAAATTCGCAACGCGAT
1 AGTCAAATTCGCAACACG-A-TAGTCAAATTCACAACACA-AAGTCAAATTCGCAACGCAAT
659374 AGTCAAAT
1 AGTCAAAT
659382 GTTTTTACGC
Statistics
Matches: 102, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
59 33 0.32
60 62 0.61
61 4 0.04
62 3 0.03
ACGTcount: A:0.44, C:0.22, G:0.12, T:0.21
Consensus pattern (59 bp):
AGTCAAATTCGCAACACGATAGTCAAATTCACAACACAAAGTCAAATTCGCAACGCAAT
Found at i:662080 original size:21 final size:21
Alignment explanation
Indices: 662054--662132 Score: 81
Period size: 21 Copynumber: 3.8 Consensus size: 21
662044 TGCACCTATC
*
662054 ATCATTCAAGAGGCGCCTCCT
1 ATCATTCAAGAGGCCCCTCCT
662075 ATCATTCAAGAGGCCCCT-CT
1 ATCATTCAAGAGGCCCCTCCT
* *
662095 CATCA-TCGAAGAAGCCCCTCCC
1 -ATCATTC-AAGAGGCCCCTCCT
* *
662117 ACCGTTCAAGAGGCCC
1 ATCATTCAAGAGGCCC
662133 TTGTCATCGT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
20 4 0.08
21 41 0.85
22 3 0.06
ACGTcount: A:0.25, C:0.38, G:0.18, T:0.19
Consensus pattern (21 bp):
ATCATTCAAGAGGCCCCTCCT
Found at i:662099 original size:42 final size:42
Alignment explanation
Indices: 662052--662150 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 42
662042 GATGCACCTA
* * *
662052 TCATCATTCAAGAGGCGCCTCCTATCATTCAAGAGGCCCCTC
1 TCATCATTCAAGAGGCCCCTCCCACCATTCAAGAGGCCCCTC
* * * *
662094 TCATCA-TCGAAGAAGCCCCTCCCACCGTTCAAGAGGCCCTTG
1 TCATCATTC-AAGAGGCCCCTCCCACCATTCAAGAGGCCCCTC
*
662136 TCATCGTTCAAGAGG
1 TCATCATTCAAGAGG
662151 TCTCATCCGC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
41 2 0.04
42 42 0.91
43 2 0.04
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.22
Consensus pattern (42 bp):
TCATCATTCAAGAGGCCCCTCCCACCATTCAAGAGGCCCCTC
Found at i:664059 original size:39 final size:39
Alignment explanation
Indices: 664005--664091 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
663995 TCAAGTTGTA
664005 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
664044 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
664083 GATTTTGAT
1 GATTTTGAT
664092 GAGCATCGGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:664420 original size:24 final size:25
Alignment explanation
Indices: 664393--664445 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
664383 AGTGGAGCCA
*
664393 AAATTTG-TATTGAAATTCAAACTC
1 AAATTTGAAATTGAAATTCAAACTC
*
664417 AAA-TTGAAATTTAAATTCAAACTC
1 AAATTTGAAATTGAAATTCAAACTC
*
664441 CAATT
1 AAATT
664446 AAATATGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 3 0.12
24 20 0.83
25 1 0.04
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (25 bp):
AAATTTGAAATTGAAATTCAAACTC
Found at i:664424 original size:18 final size:18
Alignment explanation
Indices: 664401--664437 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
664391 CAAAATTTGT
664401 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
664419 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
664437 A
1 A
664438 CTCCAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:664456 original size:24 final size:24
Alignment explanation
Indices: 664401--664456 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
664391 CAAAATTTGT
664401 ATTGAAATTCAAACTCAAATTGAA
1 ATTGAAATTCAAACTCAAATTGAA
* *
664425 ATTTAAATTCAAACTCCAATT-AA
1 ATTGAAATTCAAACTCAAATTGAA
664448 ATATGAAAT
1 AT-TGAAAT
664457 GAATTTGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.32
Consensus pattern (24 bp):
ATTGAAATTCAAACTCAAATTGAA
Found at i:664898 original size:20 final size:20
Alignment explanation
Indices: 664875--664917 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
664865 GATTTTCAGT
664875 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTGACTTTCGCG
*
664895 TTGCGAATTTGACTTTTGCG
1 TTGCGAATTTGACTTTCGCG
664915 TTG
1 TTG
664918 ATCGCAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.16, G:0.26, T:0.44
Consensus pattern (20 bp):
TTGCGAATTTGACTTTCGCG
Found at i:667506 original size:24 final size:24
Alignment explanation
Indices: 667472--667525 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
667462 CCATCACATC
*
667472 ATCAAAATCCGAGTATTGGCCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
667496 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
667520 ATCAAA
1 ATCAAA
667526 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:668478 original size:40 final size:39
Alignment explanation
Indices: 668416--668505 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 39
668406 CTAAAACCTA
*
668416 TTGCGAAATT-AAATTCGCGTTGCGAATTTGAAATTCAG
1 TTGCGAATTTGAAATTCGCGTTGCGAATTTGAAATTCAG
** **
668454 TTGCGAATTTGAAATTCCGCGTTGCGAATTTGACTTTGTG
1 TTGCGAATTTGAAATT-CGCGTTGCGAATTTGAAATTCAG
668494 TTGCGAATTTGA
1 TTGCGAATTTGA
668506 GTATCGCATT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
38 9 0.20
39 5 0.11
40 31 0.69
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (39 bp):
TTGCGAATTTGAAATTCGCGTTGCGAATTTGAAATTCAG
Found at i:668479 original size:21 final size:20
Alignment explanation
Indices: 668416--668505 Score: 105
Period size: 19 Copynumber: 4.6 Consensus size: 20
668406 CTAAAACCTA
*
668416 TTGCGAAATT-AAATTCGCG
1 TTGCGAATTTGAAATTCGCG
*
668435 TTGCGAATTTGAAATTC-AG
1 TTGCGAATTTGAAATTCGCG
668454 TTGCGAATTTGAAATTCCGCG
1 TTGCGAATTTGAAATT-CGCG
* * *
668475 TTGCGAATTTG-ACTTTGTG
1 TTGCGAATTTGAAATTCGCG
668494 TTGCGAATTTGA
1 TTGCGAATTTGA
668506 GTATCGCATT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
19 39 0.64
20 10 0.16
21 12 0.20
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (20 bp):
TTGCGAATTTGAAATTCGCG
Found at i:674962 original size:19 final size:19
Alignment explanation
Indices: 674938--674974 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
674928 ATTAATTTTT
*
674938 ATTATAAAATATTTTAAAG
1 ATTATAAAACATTTTAAAG
674957 ATTATAAAACATTTTAAA
1 ATTATAAAACATTTTAAA
674975 AAAATTATTT
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:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (19 bp):
ATTATAAAACATTTTAAAG
Found at i:678773 original size:18 final size:18
Alignment explanation
Indices: 678728--678764 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
678718 ACAGAGAGAA
678728 GCCAGCCGGCCGGCAGCC
1 GCCAGCCGGCCGGCAGCC
678746 GCCAGCCGGCCGGCAGCC
1 GCCAGCCGGCCGGCAGCC
678764 G
1 G
678765 TCAGTCGGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.49, G:0.41, T:0.00
Consensus pattern (18 bp):
GCCAGCCGGCCGGCAGCC
Found at i:679588 original size:3 final size:3
Alignment explanation
Indices: 679580--679647 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
679570 AATATATATT
*
679580 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
679628 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
679648 TGGATAAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:680104 original size:116 final size:117
Alignment explanation
Indices: 679967--680643 Score: 926
Period size: 116 Copynumber: 5.9 Consensus size: 117
679957 GATAGAATTA
* * *
679967 TTGAACAAGTTCTTCTTATTATAAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
* * * *
680032 GAACTCTTC-CTGGCAATGTTGATCCATCAAATAATGAATTCAAACAAAAAG
66 GAACTCTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAGG
*
680083 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
** * * * * *
680145 GAACT-TTCTCTGGAAAAAATAATCCATCCAGTGATAAATTCAGACAAAAGG
66 GAACTCTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAGG
680196 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
** * * * * *
680261 GAACT-TTCTCTGGAAAAAATAATCCATCCAGTGATTAATTCAGACAAAAGG
66 GAACTCTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAGG
680312 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
* * *
680377 GAACTCTTCCTCTGGAAATGATGATCCATTAATTTGATGAATTCAAGCAAAAGG
66 GAACTCTT-CTCTGGAAATGATGATCCATCAA-ATGATGAATTCAAACAAAAGG
680431 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
* * * * *
680496 GAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAAATCAAGCAAAAGG
66 GAACTCTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAGG
* *
680547 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
* * * **
680609 GAACTCTAC-CTGGCAATGTTGATCTTTCAAATGAT
66 GAACTCTTCTCTGGAAATGATGATCCATCAAATGAT
680644 AGATTTGAAT
Statistics
Matches: 520, Mismatches: 34, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
112 3 0.01
113 146 0.28
116 243 0.47
117 20 0.04
118 19 0.04
119 89 0.17
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (117 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
GAACTCTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAGG
Found at i:681508 original size:83 final size:83
Alignment explanation
Indices: 681372--682078 Score: 1137
Period size: 83 Copynumber: 8.5 Consensus size: 83
681362 GTTCCTCCCA
* * **
681372 AACCAGATCAGATAACTCAAAGAACATTTACAGAAGATGCTATTGGCAAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
*
681437 CAATGATTGGTTCTG-CC
66 CAATGATTGATTCTGTCC
**
681454 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAAT
1 -AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAAT
* *
681519 TCAATGATTGGTTCTGCCC
65 TCAATGATTGATTCTGTCC
**
681538 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
681603 CAATGATTGATTCTGTCC
66 CAATGATTGATTCTGTCC
* *
681621 AACCAGATCAGATAACTCAAAGAACAATTCTAGAAGATGCTATTAACAAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
681686 CAATGATTGATTCTGTCC
66 CAATGATTGATTCTGTCC
* *
681704 AACCAGATCAGATAACTTAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
681769 CAATGATTGATTCTGTCC
66 CAATGATTGATTCTGTCC
* * * *
681787 CACCTGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATTAACAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
681852 CAATGATTGATTCTGTCC
66 CAATGATTGATTCTGTCC
* * *
681870 CACCTGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
681935 CAATGATTGATTCTGTCC
66 CAATGATTGATTCTGTCC
* * * * *
681953 CACCTGATCAGATAACTCAAAGAACACTTCTAGAAGATGTTATTAACAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
682018 CAATGATTGATTCTGTCC
66 CAATGATTGATTCTGTCC
* *
682036 CACCTGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
682079 GAGTATATTT
Statistics
Matches: 602, Mismatches: 21, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
83 600 1.00
84 2 0.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (83 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCCAAATT
CAATGATTGATTCTGTCC
Found at i:683145 original size:9 final size:9
Alignment explanation
Indices: 683131--683200 Score: 57
Period size: 9 Copynumber: 8.3 Consensus size: 9
683121 TTGACCCTCT
683131 TTCTTTTTC
1 TTCTTTTTC
683140 TTCTTTTTC
1 TTCTTTTTC
683149 -TC-TTTT-
1 TTCTTTTTC
683155 TTCTTTTTTC
1 TTC-TTTTTC
683165 TAT-TTTTT-
1 T-TCTTTTTC
683173 TTC-TTTTC
1 TTCTTTTTC
683181 TT-TTTTT-
1 TTCTTTTTC
683188 TTCTTTTTTC
1 TTC-TTTTTC
683198 TTC
1 TTC
683201 AAGCATAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 21
0.70 0.00 0.30
Matches are distributed among these distances:
7 13 0.26
8 9 0.18
9 23 0.46
10 4 0.08
11 1 0.02
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.81
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:683158 original size:15 final size:15
Alignment explanation
Indices: 683130--683199 Score: 64
Period size: 14 Copynumber: 5.0 Consensus size: 15
683120 CTTGACCCTC
683130 TTTCT-TTTTCTTCTT
1 TTTCTCTTTT-TTCTT
683145 TTTCTCTTTTTTCTT
1 TTTCTCTTTTTTCTT
*
683160 TTT-TC-TATTT-TT
1 TTTCTCTTTTTTCTT
683172 TTTCT-TTTCTTT-TT
1 TTTCTCTTT-TTTCTT
683186 TTT-TCTTTTTTCTT
1 TTTCTCTTTTTTCTT
683200 CAAGCATAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
12 5 0.11
13 10 0.21
14 15 0.32
15 13 0.28
16 4 0.09
ACGTcount: A:0.01, C:0.16, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTCTCTTTTTTCTT
Found at i:683174 original size:11 final size:10
Alignment explanation
Indices: 683128--683196 Score: 61
Period size: 10 Copynumber: 6.8 Consensus size: 10
683118 ACCTTGACCC
*
683128 TCTTTCTTTT
1 TCTTTTTTTT
*
683138 TCTTCTTTTTC
1 TCTT-TTTTTT
683149 TCTTTTTTCTT
1 TCTTTTTT-TT
*
683160 T-TTTCTATTT
1 TCTTT-TTTTT
*
683170 T-TTTTCTTT
1 TCTTTTTTTT
683179 TCTTTTTTTT
1 TCTTTTTTTT
683189 TCTTTTTT
1 TCTTTTTT
683197 CTTCAAGCAT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
9 5 0.10
10 32 0.65
11 12 0.24
ACGTcount: A:0.01, C:0.16, G:0.00, T:0.83
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:683177 original size:33 final size:33
Alignment explanation
Indices: 683134--683198 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
683124 ACCCTCTTTC
683134 TTTTTCTTCTTTT-TCTCTTTTTTCTTTTTTCTA
1 TTTTTCTTCTTTTCT-TCTTTTTTCTTTTTTCTA
* *
683167 TTTTTTTTCTTTTCTTTTTTTTTCTTTTTTCT
1 TTTTTCTTCTTTTCTTCTTTTTTCTTTTTTCT
683199 TCAAGCATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (33 bp):
TTTTTCTTCTTTTCTTCTTTTTTCTTTTTTCTA
Found at i:693865 original size:17 final size:17
Alignment explanation
Indices: 693843--693887 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
693833 AAAATAAAAC
*
693843 ATATAAATATTATGAAA
1 ATATAAAAATTATGAAA
*
693860 ATATAAAAATTTTGAAA
1 ATATAAAAATTATGAAA
*
693877 AGA-AAAAATTA
1 ATATAAAAATTA
693888 AAAATTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (17 bp):
ATATAAAAATTATGAAA
Found at i:696027 original size:3 final size:3
Alignment explanation
Indices: 696019--696074 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
696009 AATATATATT
*
696019 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
696067 TAA TAA TA
1 TAA TAA TA
696075 TGGATAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:722646 original size:16 final size:15
Alignment explanation
Indices: 722625--722658 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
722615 TCTATTTTTT
722625 ATATTTTTAAAATAAA
1 ATATTTTTAAAA-AAA
*
722641 ATATTTTTTAAAAAA
1 ATATTTTTAAAAAAA
722656 ATA
1 ATA
722659 AATGTGACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATTTTTAAAAAAA
Found at i:724477 original size:18 final size:18
Alignment explanation
Indices: 724456--724520 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
724446 GACCCACCTA
724456 CCCGATCCGACTCGCTTG
1 CCCGATCCGACTCGCTTG
*
724474 CCCGATCTGAC-CTG-TCTG
1 CCCGATCCGACTC-GCT-TG
*
724492 CCCGATCTGACAT-GCTTG
1 CCCGATCCGAC-TCGCTTG
*
724510 TCCGATCCGAC
1 CCCGATCCGAC
724521 CCAACTCGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
17 2 0.05
18 36 0.92
19 1 0.03
ACGTcount: A:0.14, C:0.40, G:0.22, T:0.25
Consensus pattern (18 bp):
CCCGATCCGACTCGCTTG
Found at i:724580 original size:18 final size:18
Alignment explanation
Indices: 724557--724604 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
724547 AAGTCATCCC
724557 TTGACCGTTGACCGACTT
1 TTGACCGTTGACCGACTT
724575 TTGACCGTTGACCGACTT
1 TTGACCGTTGACCGACTT
724593 TTGACCGTTGAC
1 TTGACCGTTGAC
724605 GTTGACTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.17, C:0.27, G:0.23, T:0.33
Consensus pattern (18 bp):
TTGACCGTTGACCGACTT
Found at i:729731 original size:18 final size:18
Alignment explanation
Indices: 729708--729750 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
729698 TCATCATCAT
729708 CATCATCAGTCTCCTCAC
1 CATCATCAGTCTCCTCAC
729726 CATCATCAGTCTCCTCAC
1 CATCATCAGTCTCCTCAC
729744 CATCATC
1 CATCATC
729751 GCCGCCCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.23, C:0.44, G:0.05, T:0.28
Consensus pattern (18 bp):
CATCATCAGTCTCCTCAC
Found at i:729759 original size:18 final size:18
Alignment explanation
Indices: 729708--729768 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
729698 TCATCATCAT
* *
729708 CATCATCAGTCTCCTCAC
1 CATCATCAGCCCCCTCAC
* *
729726 CATCATCAGTCTCCTCAC
1 CATCATCAGCCCCCTCAC
729744 CATCATC-GCCGCCCTCAC
1 CATCATCAGCC-CCCTCAC
*
729762 CTTCATC
1 CATCATC
729769 TTCACTATCA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
17 2 0.05
18 37 0.95
ACGTcount: A:0.20, C:0.48, G:0.07, T:0.26
Consensus pattern (18 bp):
CATCATCAGCCCCCTCAC
Found at i:729786 original size:21 final size:21
Alignment explanation
Indices: 729762--729804 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
729752 CCGCCCTCAC
729762 CTTCATCTTCACTATCATCAT
1 CTTCATCTTCACTATCATCAT
* * *
729783 CTTCGTCTTCATTATCTTCAT
1 CTTCATCTTCACTATCATCAT
729804 C
1 C
729805 CTCTGAGGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.33, G:0.02, T:0.47
Consensus pattern (21 bp):
CTTCATCTTCACTATCATCAT
Found at i:736556 original size:19 final size:19
Alignment explanation
Indices: 736532--736582 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
736522 GAAAATATTC
736532 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
736551 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
736570 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
736583 TTAAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:736624 original size:65 final size:65
Alignment explanation
Indices: 736426--736633 Score: 216
Period size: 65 Copynumber: 3.2 Consensus size: 65
736416 GCACCAAGTG
* ** * *
736426 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTCCATCGATGCATGG-CTT
1 TGCATCGGTGCATGAAATGCATTCGATGTTTG-AAAATATTCAGAGTGCATCGATGCATGGAC-T
736489 G-
64 GA
* *
736490 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTGAAAATATTCAGAGTGCATCGATGCATGGACTG
736553 A
65 A
* *
736554 GTGCATCGGTGCATGGAATGCATTCGATG-TT-AAATTAATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTGAAAAT-ATTCA--GAGTGCATCGATGCATGGA
736616 CTGA
62 CTGA
736620 TGCATCGGTGCATG
1 TGCATCGGTGCATG
736634 CCTTTGAATA
Statistics
Matches: 125, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
62 4 0.03
63 8 0.06
64 51 0.41
65 60 0.48
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (65 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTGAAAATATTCAGAGTGCATCGATGCATGGACTGA
Found at i:736824 original size:20 final size:21
Alignment explanation
Indices: 736801--736840 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
736791 GAATCGAATA
736801 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
736821 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
736841 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:744958 original size:64 final size:64
Alignment explanation
Indices: 744905--745067 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 64
744895 CGGTGCACCA
*
744905 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** * **
744969 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
745034 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
745068 CAATTAATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
64 39 0.46
65 46 0.54
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:745039 original size:19 final size:19
Alignment explanation
Indices: 745015--745065 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
745005 GAAAATATTC
745015 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
745034 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
745053 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
745066 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:745107 original size:65 final size:65
Alignment explanation
Indices: 744909--745116 Score: 207
Period size: 65 Copynumber: 3.2 Consensus size: 65
744899 GCACCAAGTG
* * ** *
744909 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-CTT
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGAC-T
744972 G-
64 GA
* * *
744973 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGACTG
745036 A
65 A
* *
745037 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
745099 CTGA
62 CTGA
745103 TGCATCGGTGCATG
1 TGCATCGGTGCATG
745117 CCTTTGAATA
Statistics
Matches: 124, Mismatches: 10, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
62 3 0.02
63 8 0.06
64 51 0.41
65 60 0.48
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (65 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGACTGA
Found at i:745307 original size:20 final size:21
Alignment explanation
Indices: 745284--745323 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
745274 GAATCGAATA
745284 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
745304 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
745324 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:750822 original size:21 final size:21
Alignment explanation
Indices: 750796--750836 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
750786 GACTATTGCA
750796 TTGCGATTTTCCAAATTCGCG
1 TTGCGATTTTCCAAATTCGCG
*
750817 TTGCGATTTTCCTAATTCGC
1 TTGCGATTTTCCAAATTCGC
750837 AATGCGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.41
Consensus pattern (21 bp):
TTGCGATTTTCCAAATTCGCG
Found at i:750842 original size:21 final size:21
Alignment explanation
Indices: 750797--750843 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
750787 ACTATTGCAT
**
750797 TGCGATTTTCCAAATTCGCGT
1 TGCGATTTTCCAAATTCGCAA
*
750818 TGCGATTTTCCTAATTCGCAA
1 TGCGATTTTCCAAATTCGCAA
750839 TGCGA
1 TGCGA
750844 ATACGTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.36
Consensus pattern (21 bp):
TGCGATTTTCCAAATTCGCAA
Found at i:751088 original size:22 final size:22
Alignment explanation
Indices: 751063--751128 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
751053 GGCGACATCC
*
751063 GTCCCCATCTCCGAAGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
751085 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
751107 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
751129 TTCACGGTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.26, C:0.38, G:0.15, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:751503 original size:20 final size:20
Alignment explanation
Indices: 751477--751623 Score: 146
Period size: 20 Copynumber: 7.7 Consensus size: 20
751467 GCGATTTTCA
*
751477 TTTCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATAGTCAT
*
751497 ATTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
751517 TTTCGTGTTGCGATTTTC-T
1 TTTCGCGTTGCGATAGTCAT
751536 TTTCGCGTTGCGAT--TC--
1 TTTCGCGTTGCGATAGTCAT
*
751552 -TT-GCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATAGTCAT
*
751570 ATTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
751590 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
*
751610 TTTCGTGTTGCGAT
1 TTTCGCGTTGCGAT
751624 TTTAAGTTTT
Statistics
Matches: 109, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
14 10 0.09
15 2 0.02
16 2 0.02
17 2 0.02
19 16 0.15
20 77 0.71
ACGTcount: A:0.14, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:751571 original size:73 final size:74
Alignment explanation
Indices: 751481--751624 Score: 272
Period size: 73 Copynumber: 2.0 Consensus size: 74
751471 TTTTCATTTC
751481 GCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTC-TTTTCGCGTT
1 GCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGCGTT
751545 GCGATTCTT
66 GCGATTCTT
*
751554 GCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGTGTT
1 GCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGCGTT
751619 GCGATT
66 GCGATT
751625 TTAAGTTTTA
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
73 54 0.78
74 15 0.22
ACGTcount: A:0.15, C:0.18, G:0.25, T:0.42
Consensus pattern (74 bp):
GCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGCGTT
GCGATTCTT
Found at i:753124 original size:6 final size:6
Alignment explanation
Indices: 753113--753142 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
753103 TCTCCCTGTT
753113 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC
1 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC
753143 GGGATGAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.67, G:0.00, T:0.17
Consensus pattern (6 bp):
CTCCAC
Found at i:753549 original size:20 final size:20
Alignment explanation
Indices: 753524--753720 Score: 188
Period size: 20 Copynumber: 10.5 Consensus size: 20
753514 AGAATAGTTT
753524 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
753544 ACTATCGCAACGTGAAAATG
1 ACTATCGCAATGCGAAAATG
*
753564 ACTATCGCAAT--G-AGA-G
1 ACTATCGCAATGCGAAAATG
*
753580 A--ATCGAAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
**
753597 AAAATCGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
*
753613 A--ATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
753631 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
753651 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
753671 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
**
753691 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
753711 ACTATCGCAA
1 ACTATCGCAA
753721 CGAAAGAATC
Statistics
Matches: 153, Mismatches: 10, Indels: 28
0.80 0.05 0.15
Matches are distributed among these distances:
14 14 0.09
16 9 0.06
17 8 0.05
18 4 0.03
19 6 0.04
20 112 0.73
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:753792 original size:20 final size:20
Alignment explanation
Indices: 753767--753833 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
753757 GATTCTCTCG
*
753767 TTGCGATAGTCAAATTCGTA
1 TTGCGATAGTCAAATTCGCA
** *
753787 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
** *
753807 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
753827 TTGCGAT
1 TTGCGAT
753834 TTTAAGTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:753843 original size:20 final size:20
Alignment explanation
Indices: 753765--753843 Score: 61
Period size: 20 Copynumber: 4.0 Consensus size: 20
753755 GTGATTCTCT
*
753765 CGTTGCGATAGTCAA-ATTCG
1 CGTTGCGATAGT-AAGTTTCG
** * *
753785 TATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
* *
753805 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
**
753825 CGTTGCGATTTTAAGTTTC
1 CGTTGCGATAGTAAGTTTC
753844 AGATTCTATT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
19 1 0.02
20 47 0.98
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.41
Consensus pattern (20 bp):
CGTTGCGATAGTAAGTTTCG
Found at i:754371 original size:42 final size:42
Alignment explanation
Indices: 754312--754423 Score: 109
Period size: 42 Copynumber: 2.7 Consensus size: 42
754302 GCCCAACTCA
** * *
754312 CCTATCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGGCC-CCTCCCACCGTTCAAGAGGCC
*
754354 CCTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGGCCCCTCCCACCGTTCAAGAGGCC
* * ** * *
754396 ACTGTCATCGTTGAAGAGGTCCCTCCCA
1 CCTATCATCCCTCAAGAGGCCCCTCCCA
754424 ACATTCTAGA
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 2 0.04
42 55 0.96
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.22
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGGCCCCTCCCACCGTTCAAGAGGCC
Found at i:754407 original size:21 final size:21
Alignment explanation
Indices: 754316--754420 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
754306 AACTCACCTA
*
754316 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
754338 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
754358 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
754379 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
754400 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
754421 CCAACATTCT
Statistics
Matches: 63, Mismatches: 19, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 3 0.05
21 59 0.94
22 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:755826 original size:14 final size:14
Alignment explanation
Indices: 755807--755842 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
755797 ATTGTTTAAT
755807 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
755821 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
755835 TGATTTGT
1 TGATTTGT
755843 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:756013 original size:33 final size:34
Alignment explanation
Indices: 755976--756041 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 34
755966 CTATCACAAC
755976 GAGAGAATCGCAATGCG-AAATGAAAATCGCAAG
1 GAGAGAATCGCAATGCGAAAATGAAAATCGCAAG
*
756009 GAGAGAATCGCAATGTGAAAATGAAAATCGCAA
1 GAGAGAATCGCAATGCGAAAATGAAAATCGCAA
756042 CGCGAAACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 16 0.52
34 15 0.48
ACGTcount: A:0.47, C:0.14, G:0.26, T:0.14
Consensus pattern (34 bp):
GAGAGAATCGCAATGCGAAAATGAAAATCGCAAG
Found at i:756083 original size:20 final size:19
Alignment explanation
Indices: 756054--756123 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 19
756044 CGAAACTAAA
*
756054 TTCGCGTTGCGATTTTCATT
1 TTCGCATTGCGATTTTCA-T
756074 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
756090 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
756107 TTCGCATTGCGATTTTC
1 TTCGCATTGCGATTTTC
756124 TCGTTGCAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
14 6 0.14
16 7 0.17
17 4 0.10
18 3 0.07
19 11 0.26
20 11 0.26
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.47
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:756101 original size:34 final size:34
Alignment explanation
Indices: 756058--756153 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 34
756048 ACTAAATTCG
756058 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
*
756092 CGTTGCGATTTTCA-TTTCGCATTGCGATTTTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
* ** * *
756125 CGTTGCAATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
756154 AGTCATTTCC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 29 0.53
34 26 0.47
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.44
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:756148 original size:20 final size:20
Alignment explanation
Indices: 756125--756193 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
756115 GCGATTTTCT
*
756125 CGTTGCAATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
756145 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
756165 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
756185 CGTTGCGAT
1 CGTTGCGAT
756194 TTCCGCGTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:758658 original size:24 final size:24
Alignment explanation
Indices: 758624--758677 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
758614 CTGAAAAATC
758624 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
758648 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
758672 ATCAAA
1 ATCAAA
758678 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:758691 original size:24 final size:24
Alignment explanation
Indices: 758624--758691 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
758614 CTGAAAAATC
* * *
758624 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
758648 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
758672 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
758692 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:759543 original size:20 final size:20
Alignment explanation
Indices: 759518--759604 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
759508 AAATTCAGTA
759518 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
*
759538 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
759558 TTGCGATTA-TCAGAATCGCG
1 TTGCGA-TAGTCAGAATCGCG
* *
759578 TTGCGATAGTCAGATTCGCT
1 TTGCGATAGTCAGAATCGCG
759598 TTGCGAT
1 TTGCGAT
759605 TTATATATTC
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
19 2 0.03
20 57 0.93
21 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:759614 original size:20 final size:20
Alignment explanation
Indices: 759591--759643 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
759581 CGATAGTCAG
* *
759591 ATTCGCTTTGCGATTTATAT
1 ATTCGCATTGCGATTTACAT
* *
759611 ATTCACATTGCGATTTACGT
1 ATTCGCATTGCGATTTACAT
759631 ATTCGCATTGCGA
1 ATTCGCATTGCGA
759644 ATTAGGAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.42
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACAT
Found at i:759622 original size:40 final size:40
Alignment explanation
Indices: 759518--759624 Score: 101
Period size: 40 Copynumber: 2.7 Consensus size: 40
759508 AAATTCAGTA
* * *
759518 TTGCGA-TAGTCAGAATCGCGTTGCGATAGTCAGAATCTCG
1 TTGCGATTA-TCAGAATCACATTGCGATAGTCAGAATCGCG
* * * *
759558 TTGCGATTATCAGAATCGCGTTGCGATAGTCAGATTCGCT
1 TTGCGATTATCAGAATCACATTGCGATAGTCAGAATCGCG
* *
759598 TTGCGATTTAT-ATATTCACATTGCGAT
1 TTGCGA-TTATCAGAATCACATTGCGAT
759625 TTACGTATTC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 52 0.90
41 6 0.10
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (40 bp):
TTGCGATTATCAGAATCACATTGCGATAGTCAGAATCGCG
Found at i:759664 original size:21 final size:20
Alignment explanation
Indices: 759640--759684 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
759630 TATTCGCATT
759640 GCGAATTAGGAAAATCGCAAC
1 GCGAA-TAGGAAAATCGCAAC
* * *
759661 GCGAATATGTAAATCGCAAT
1 GCGAATAGGAAAATCGCAAC
759681 GCGA
1 GCGA
759685 TAGTCGAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
GCGAATAGGAAAATCGCAAC
Found at i:760590 original size:13 final size:13
Alignment explanation
Indices: 760572--760598 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
760562 GTGGTTCAAG
760572 TCTTGTTTTAAAA
1 TCTTGTTTTAAAA
760585 TCTTGTTTTAAAA
1 TCTTGTTTTAAAA
760598 T
1 T
760599 GATCGATGGC
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:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (13 bp):
TCTTGTTTTAAAA
Found at i:761368 original size:16 final size:16
Alignment explanation
Indices: 761347--761377 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
761337 CACTAATTCT
*
761347 TTTCATTTTTGTTTTC
1 TTTCATTTTTATTTTC
761363 TTTCATTTTTATTTT
1 TTTCATTTTTATTTT
761378 TATCATTTGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTCATTTTTATTTTC
Found at i:765780 original size:36 final size:36
Alignment explanation
Indices: 765733--765806 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
765723 CTAGGGAACC
765733 AGAGAATATCCAAGCAACCAACTCTAGCCAAGATGT
1 AGAGAATATCCAAGCAACCAACTCTAGCCAAGATGT
*
765769 AGAGAATATCCAAGCAACCAACTCTAGCCAAGCTGT
1 AGAGAATATCCAAGCAACCAACTCTAGCCAAGATGT
765805 AG
1 AG
765807 GGAAAACCCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.41, C:0.26, G:0.18, T:0.16
Consensus pattern (36 bp):
AGAGAATATCCAAGCAACCAACTCTAGCCAAGATGT
Found at i:765818 original size:36 final size:36
Alignment explanation
Indices: 765733--765818 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 36
765723 CTAGGGAACC
* *
765733 AGAGAATATCCAAGCAACCAACTCTAGCCAAGATGT
1 AGAGAAAACCCAAGCAACCAACTCTAGCCAAGATGT
* * *
765769 AGAGAATATCCAAGCAACCAACTCTAGCCAAGCTGT
1 AGAGAAAACCCAAGCAACCAACTCTAGCCAAGATGT
*
765805 AGGGAAAACCCAAG
1 AGAGAAAACCCAAG
765819 AATTACGCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.42, C:0.26, G:0.19, T:0.14
Consensus pattern (36 bp):
AGAGAAAACCCAAGCAACCAACTCTAGCCAAGATGT
Found at i:767109 original size:2 final size:2
Alignment explanation
Indices: 767102--767170 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
767092 TTCTATTTCC
767102 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
767144 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
767171 GATTTTATGC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:767292 original size:2 final size:2
Alignment explanation
Indices: 767285--767337 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
767275 AGACCTTGGG
767285 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
767327 TA TA TA TA TA T
1 TA TA TA TA TA T
767338 TTATTTTTCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:773207 original size:22 final size:22
Alignment explanation
Indices: 773182--773223 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
773172 AGGAATCAAT
*
773182 TTATTGTAATT-TATGTTTTAGG
1 TTATTCTAATTATA-GTTTTAGG
773204 TTATTCTAATTATAGTTTTA
1 TTATTCTAATTATAGTTTTA
773224 ATTTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (22 bp):
TTATTCTAATTATAGTTTTAGG
Found at i:774973 original size:16 final size:17
Alignment explanation
Indices: 774941--774976 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
774931 AAAAAAGTAT
774941 AAATTTAATAAATATTA
1 AAATTTAATAAATATTA
774958 AAATTTATATAAATTATTA
1 AAATTTA-ATAAA-TATTA
774977 CTATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 5 0.29
19 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATTTAATAAATATTA
Found at i:777616 original size:17 final size:18
Alignment explanation
Indices: 777594--777698 Score: 76
Period size: 17 Copynumber: 5.8 Consensus size: 18
777584 TCAAAAGGTT
777594 TTATATTTAATTTT-ATA
1 TTATATTTAATTTTAATA
*
777611 TTATATTTGATTTTAATA
1 TTATATTTAATTTTAATA
*
777629 TTA-ATTT--TTTAAATAAA
1 TTATATTTAATTTTAAT--A
*
777646 TTAAATATTAATTTTAATA
1 TTATAT-TTAATTTTAATA
* *
777665 TTATATTATAGATATTAATT
1 TTATATT-TA-ATTTTAATA
777685 TTA-ATATTAATTTT
1 TTATAT-TTAATTTT
777699 TAAAATAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
15 6 0.08
17 21 0.30
18 13 0.18
19 14 0.20
20 11 0.15
21 6 0.08
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TTATATTTAATTTTAATA
Found at i:777630 original size:30 final size:29
Alignment explanation
Indices: 777592--777698 Score: 90
Period size: 30 Copynumber: 3.6 Consensus size: 29
777582 CTTCAAAAGG
*
777592 TTTT-ATATTTAATTTTATATTATATTTGA
1 TTTTAATA-TTAATTTTATATTATATTTAA
* * * *
777621 TTTTAATATTAATTTTTTAAATAAATTAAA
1 TTTTAATATTAATTTTAT-ATTATATTTAA
* * *
777651 TATTAATTTTAATATTATATTATAGATATTAA
1 TTTTAATATTAATTTTATATTAT--AT-TTAA
777683 TTTTAATATTAATTTT
1 TTTTAATATTAATTTT
777699 TAAAATAAAA
Statistics
Matches: 58, Mismatches: 15, Indels: 7
0.73 0.19 0.09
Matches are distributed among these distances:
29 16 0.28
30 24 0.41
31 2 0.03
32 16 0.28
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
TTTTAATATTAATTTTATATTATATTTAA
Found at i:777635 original size:12 final size:12
Alignment explanation
Indices: 777620--777698 Score: 81
Period size: 12 Copynumber: 6.4 Consensus size: 12
777610 ATTATATTTG
777620 ATTTTAATATTA
1 ATTTTAATATTA
777632 ATTTTTTAA-A-TA
1 A--TTTTAATATTA
* *
777644 AATTAAATATTA
1 ATTTTAATATTA
777656 ATTTTAATATTA
1 ATTTTAATATTA
*
777668 TATTATAGATATTA
1 -ATTTTA-ATATTA
777682 ATTTTAATATTA
1 ATTTTAATATTA
777694 ATTTT
1 ATTTT
777699 TAAAATAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
10 4 0.07
11 1 0.02
12 27 0.49
13 11 0.20
14 12 0.22
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (12 bp):
ATTTTAATATTA
Found at i:777697 original size:62 final size:63
Alignment explanation
Indices: 777599--777752 Score: 217
Period size: 62 Copynumber: 2.5 Consensus size: 63
777589 AGGTTTTATA
* * * * *
777599 TTTAATTTTATATTAT--AT-TTGATTTTAATATTAATTTTTTAAATAAATTAAATATTAA-T
1 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTAAAATAAAATAAAAATTAATT
777658 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTAAAATAAAATAAAAATTAATTT
1 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTAAAATAAAATAAAAATTAA-TT
777722 TTTAATATTATATTATAGATATTTAATTTTA
1 TTTAATATTATATTATAGATA-TTAATTTTA
777753 TATCATATAA
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
59 15 0.18
61 2 0.02
62 36 0.43
64 22 0.26
65 9 0.11
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (63 bp):
TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTAAAATAAAATAAAAATTAATT
Found at i:777768 original size:24 final size:22
Alignment explanation
Indices: 777717--777786 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 22
777707 AATAAAAATT
*
777717 AATTTTTTAATATTATATTATA
1 AATTATTTAATATTATATTATA
* *
777739 GA-TATTTAATTTTATATCATATA
1 AATTATTTAATATTATAT--TATA
*
777762 AATTATTTTATA-TATTATTA-A
1 AATTATTTAATATTA-TATTATA
777783 AATT
1 AATT
777787 TTATATTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
21 18 0.47
22 3 0.08
23 7 0.18
24 10 0.26
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (22 bp):
AATTATTTAATATTATATTATA
Found at i:777807 original size:20 final size:19
Alignment explanation
Indices: 777747--777808 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
777737 TAGATATTTA
*
777747 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
777766 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
777784 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
777804 ATTTT
1 ATTTT
777809 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:778069 original size:21 final size:22
Alignment explanation
Indices: 778045--778094 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
778035 AATATTTTCT
*
778045 AAAAATAT-CATATA-ATTATAA
1 AAAAATATGAATATATATT-TAA
778066 AAAAATTATGAATATATATTTAA
1 AAAAA-TATGAATATATATTTAA
778089 AAAAAT
1 AAAAAT
778095 TAAAAGTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 5 0.20
22 4 0.16
23 13 0.52
24 3 0.12
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (22 bp):
AAAAATATGAATATATATTTAA
Found at i:778303 original size:31 final size:31
Alignment explanation
Indices: 778268--778327 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
778258 TAGTTGTATG
* *
778268 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
778299 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
778328 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:784053 original size:29 final size:28
Alignment explanation
Indices: 784011--784070 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 28
784001 TTCACCTAAC
784011 TAAATTGATGTAAGCAATGACATAAAAAT
1 TAAATTGATGTAAGCAATGACAT-AAAAT
*
784040 TAAATTGATGTAAGCAATGACATCAAAT
1 TAAATTGATGTAAGCAATGACATAAAAT
784068 TAA
1 TAA
784071 TTTAGGTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 7 0.23
29 23 0.77
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.28
Consensus pattern (28 bp):
TAAATTGATGTAAGCAATGACATAAAAT
Found at i:796538 original size:44 final size:44
Alignment explanation
Indices: 796488--796748 Score: 324
Period size: 44 Copynumber: 5.9 Consensus size: 44
796478 TTGAAGGAAG
* * *
796488 TTTCTGAAGGCTCATTTGGTATGTGAAAGGGTAAGACTTTACCA
1 TTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTACCA
**
796532 TTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTAGTA
1 TTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTACCA
* * *
796576 TTTCTGAAGACTCCTTTACTATGTGCAAGGGTAAGACCTTACCA
1 TTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTACCA
* *
796620 TTTCTGATGGCTCATTTGCTATGTGCAAGAGTAAGACCTTACCA
1 TTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTACCA
* * ** * * *
796664 TTTCTGAAGGCTCATCTGCTATGTGCCATTGTAAGAACGTACCG
1 TTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTACCA
* * * * *
796708 TTTCCGCAGGTTCCTCTGCTATGTGCAAGGGTAAGACCTTA
1 TTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTA
796749 TCGCTTTCCG
Statistics
Matches: 185, Mismatches: 32, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 185 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (44 bp):
TTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTACCA
Found at i:803577 original size:44 final size:44
Alignment explanation
Indices: 803527--803751 Score: 362
Period size: 44 Copynumber: 5.1 Consensus size: 44
803517 TTGGAGGAAG
803527 TTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTACCA
1 TTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTACCA
** * *
803571 TTTCTGAAGGCTCCCTTGCTATGTGTAAGGGGAAGACCTTACCA
1 TTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTACCA
*
803615 TTTCTGAAGGCTCATTTTCTATGTGCAAGGGTAAGACCTTACCA
1 TTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTACCA
803659 TTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTACCA
1 TTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTACCA
* *
803703 TTTCTGAAGGCTTC-TCTACTATGTGCAAGGGTAAGACCTTACCA
1 TTTCTGAAGGC-TCATTTGCTATGTGCAAGGGTAAGACCTTACCA
*
803747 CTTCT
1 TTTCT
803752 CACAGACTCC
Statistics
Matches: 167, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
44 165 0.99
45 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (44 bp):
TTTCTGAAGGCTCATTTGCTATGTGCAAGGGTAAGACCTTACCA
Found at i:808526 original size:20 final size:20
Alignment explanation
Indices: 808506--808569 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
808496 CTGTAAAAAT
* *
808506 AGTACTAATACTATTTGAAT
1 AGTACTGATACTATTTGAAC
* *
808526 AGTACTGATATTGTTTGAAC
1 AGTACTGATACTATTTGAAC
* *
808546 ATTATTGATACTATTTGAAC
1 AGTACTGATACTATTTGAAC
808566 AGTA
1 AGTA
808570 ATGAACAGTC
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (20 bp):
AGTACTGATACTATTTGAAC
Found at i:811753 original size:18 final size:18
Alignment explanation
Indices: 811722--811779 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
811712 CAACAATTGG
811722 TAACAATTGGTATCTTTT
1 TAACAATTGGTATCTTTT
* *
811740 TAATAATTGATATCCTTTTGT
1 TAACAATTGGTAT-C-TTT-T
811761 TAACAATTGGTATCTTTT
1 TAACAATTGGTATCTTTT
811779 T
1 T
811780 CATTAAACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 13 0.39
19 4 0.12
20 4 0.12
21 12 0.36
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.52
Consensus pattern (18 bp):
TAACAATTGGTATCTTTT
Found at i:811768 original size:21 final size:20
Alignment explanation
Indices: 811722--811779 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
811712 CAACAATTGG
811722 TAACAATTGGTAT-C-TTTT
1 TAACAATTGGTATCCTTTTT
* *
811740 TAATAATTGATATCCTTTTGT
1 TAACAATTGGTATCCTTTT-T
811761 TAACAATTGGTAT-CTTTTT
1 TAACAATTGGTATCCTTTTT
811780 CATTAAACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
18 11 0.33
19 2 0.06
20 8 0.24
21 12 0.36
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.52
Consensus pattern (20 bp):
TAACAATTGGTATCCTTTTT
Found at i:812047 original size:20 final size:20
Alignment explanation
Indices: 812018--812076 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
812008 GTATAAATAG
812018 TACCGATACTGTTTGAACAA
1 TACCGATACTGTTTGAACAA
*
812038 TACTGATACTGTTTGAACAA
1 TACCGATACTGTTTGAACAA
812058 TACCGATACTGTTTGAACA
1 TACCGATACTGTTTGAACA
812077 GTAATGAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (20 bp):
TACCGATACTGTTTGAACAA
Found at i:812226 original size:21 final size:21
Alignment explanation
Indices: 812197--812236 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
812187 TTGAATTTTA
812197 TGAAAGGGTATCGATACCCAT
1 TGAAAGGGTATCGATACCCAT
*
812218 TGAAGGGGTATCGATACCC
1 TGAAAGGGTATCGATACCC
812237 CTGTACGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (21 bp):
TGAAAGGGTATCGATACCCAT
Found at i:812554 original size:34 final size:33
Alignment explanation
Indices: 812515--812585 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
812505 TTTTGTAAAG
* * *
812515 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-GCAAAAACTA
* *
812549 GGGAAATGTTCTAGTTTAGCCCGGCAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGCAAAAACTA
812582 GGGA
1 GGGA
812586 GTTGTAAGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 12 0.38
34 20 0.62
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (33 bp):
GGGAAAGGTTCTAGCTTAGCCCGGCAAAAACTA
Found at i:813493 original size:64 final size:64
Alignment explanation
Indices: 813392--813519 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
813382 AGAGAACAAC
813392 CATCCAAGCAATCAAACACAAGAGAAGAGTTTTTCATTCTTATTTCATCTTTCTCTTGTAAATA
1 CATCCAAGCAATCAAACACAAGAGAAGAGTTTTTCATTCTTATTTCATCTTTCTCTTGTAAATA
813456 CATCCAAGCAATCAAACACAAGAGAAGAGTTTTTCATTCTTATTTCATCTTTCTCTTGTAAATA
1 CATCCAAGCAATCAAACACAAGAGAAGAGTTTTTCATTCTTATTTCATCTTTCTCTTGTAAATA
813520 TTTTGTTCTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (64 bp):
CATCCAAGCAATCAAACACAAGAGAAGAGTTTTTCATTCTTATTTCATCTTTCTCTTGTAAATA
Found at i:814234 original size:14 final size:14
Alignment explanation
Indices: 814215--814243 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
814205 AACCTCAACT
814215 TAATGCCAACGCCA
1 TAATGCCAACGCCA
814229 TAATGCCAACGCCA
1 TAATGCCAACGCCA
814243 T
1 T
814244 GCACATGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.17
Consensus pattern (14 bp):
TAATGCCAACGCCA
Found at i:814567 original size:19 final size:20
Alignment explanation
Indices: 814543--814590 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
814533 AACGATTTTC
*
814543 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
814562 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
814582 TTTTGAAAA
1 TTTTGAAAA
814591 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Done.