Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008017.1 Hibiscus syriacus cultivar Beakdansim tig00110483_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: 3132588
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 15
Found at i:490993 original size:66 final size:66
Alignment explanation
Indices: 490885--491014 Score: 224
Period size: 66 Copynumber: 2.0 Consensus size: 66
490875 ATTACTATCG
* *
490885 CAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGCTAATTTC
1 CAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGCGAATTTC
490950 A
66 A
* *
490951 CAATGCGAAATAAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
1 CAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGCGAATTT
491015 AATTTCGCGT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.16
Consensus pattern (66 bp):
CAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGCGAATTTC
A
Found at i:491191 original size:14 final size:14
Alignment explanation
Indices: 491172--491208 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
491162 CATCAATTAA
491172 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
491186 ACAAATCACCTTTT
1 ACAAATCAACTTTT
491200 ACAAATCAA
1 ACAAATCAA
491209 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:492609 original size:21 final size:21
Alignment explanation
Indices: 492585--492695 Score: 55
Period size: 21 Copynumber: 5.3 Consensus size: 21
492575 GTGGGAGGGA
492585 CCTCTTCAACGATGACAGTGG
1 CCTCTTCAACGATGACAGTGG
* * ** *
492606 CCTCTTAAACGGTGGGAGGGG
1 CCTCTTCAACGATGACAGTGG
* * * * *
492627 ACTC-TCGAGGAATGATAGGGG
1 CCTCTTCAACG-ATGACAGTGG
*
492648 CCTCTTCAACGAT-AGGAGTGG
1 CCTCTTCAACGATGA-CAGTGG
* * **
492669 ACTCTTGAGGGATGACAGTGG
1 CCTCTTCAACGATGACAGTGG
492690 CCTCTT
1 CCTCTT
492696 GAATGGTGGG
Statistics
Matches: 63, Mismatches: 23, Indels: 8
0.67 0.24 0.09
Matches are distributed among these distances:
20 4 0.06
21 54 0.86
22 5 0.08
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (21 bp):
CCTCTTCAACGATGACAGTGG
Found at i:492650 original size:42 final size:42
Alignment explanation
Indices: 492604--492737 Score: 178
Period size: 42 Copynumber: 3.2 Consensus size: 42
492594 CGATGACAGT
492604 GGCCTCTTAAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTAAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
* * * * * * * *
492646 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGT
1 GGCCTCTTAAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
* *
492688 GGCCTCTTGAATGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTAAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
492730 GGCCTCTT
1 GGCCTCTT
492738 CAATGATAGG
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.22, C:0.18, G:0.38, T:0.22
Consensus pattern (42 bp):
GGCCTCTTAAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
Found at i:492727 original size:84 final size:84
Alignment explanation
Indices: 492595--492770 Score: 325
Period size: 84 Copynumber: 2.1 Consensus size: 84
492585 CCTCTTCAAC
492595 GATGACAGTGGCCTCTTAAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTAAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
492660 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
* * *
492679 GATGACAGTGGCCTCTTGAATGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGA
1 GATGACAGTGGCCTCTTAAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
492744 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
492763 GATGACAG
1 GATGACAG
492771 GCGAGTCGGG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.24, C:0.16, G:0.38, T:0.22
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTAAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGGAGTGGACTCTTGAGG
Found at i:492755 original size:42 final size:42
Alignment explanation
Indices: 492620--492767 Score: 188
Period size: 42 Copynumber: 3.5 Consensus size: 42
492610 TTAAACGGTG
*
492620 GGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGATA
1 GGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGATA
* * * * * * * *
492662 GGAGTGGACTCTTGAGGGATGACAGTGGCCTCTTGAATGGTG
1 GGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGATA
492704 GGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGATA
1 GGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGATA
* * *
492746 GGAGTGGACTCTTGAGGGATGA
1 GGAGGGGACTCTCGAGGAATGA
492768 CAGGCGAGTC
Statistics
Matches: 86, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 86 1.00
ACGTcount: A:0.24, C:0.16, G:0.39, T:0.22
Consensus pattern (42 bp):
GGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGATA
Found at i:493166 original size:91 final size:90
Alignment explanation
Indices: 492989--493173 Score: 291
Period size: 91 Copynumber: 2.0 Consensus size: 90
492979 ATTTCAAACT
*
492989 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
493054 AGAATTGGCAGCAACCAAATAAATTTAC
63 AGAATTGGCAGCAACCAAATAAATTTAC
493082 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
* *
493146 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCAAATAAATTTAC
493173 T
1 T
493174 AAGCAATCTA
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
91 41 0.47
93 19 0.22
95 27 0.31
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCAAATAAATTTAC
Found at i:494891 original size:20 final size:19
Alignment explanation
Indices: 494860--495014 Score: 106
Period size: 19 Copynumber: 8.8 Consensus size: 19
494850 TCTTTTGGTT
494860 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
494879 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
494900 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
494919 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
**
494933 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
494952 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
494966 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
494985 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
494999 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
495015 TGCGATTTTG
Statistics
Matches: 106, Mismatches: 13, Indels: 34
0.69 0.08 0.22
Matches are distributed among these distances:
14 31 0.29
16 6 0.06
17 6 0.06
19 32 0.30
20 29 0.27
21 2 0.02
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:494928 original size:14 final size:14
Alignment explanation
Indices: 494909--494997 Score: 70
Period size: 14 Copynumber: 5.6 Consensus size: 14
494899 GGAAATGACT
494909 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
494923 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
494940 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
*
494956 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
494975 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
494989 ATCGCAACG
1 ATCGCAACG
494998 CGAAATGAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
14 26 0.43
15 1 0.02
16 8 0.13
17 8 0.13
18 1 0.02
19 17 0.28
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.10
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:494942 original size:33 final size:33
Alignment explanation
Indices: 494885--495014 Score: 215
Period size: 33 Copynumber: 3.9 Consensus size: 33
494875 ACGAGATAAT
**
494885 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGAAAATCGCAACGA
**
494919 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
494952 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
494985 GAGAATCGCAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGAAAATCGCAA
495015 TGCGATTTTG
Statistics
Matches: 94, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
33 80 0.85
34 14 0.15
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:495048 original size:19 final size:19
Alignment explanation
Indices: 495015--495059 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
495005 AAAATCGCAA
*
495015 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
495034 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
495053 TGCGATT
1 TGCGATT
495060 CTCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:495639 original size:20 final size:20
Alignment explanation
Indices: 495614--495666 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
495604 ACGCTATGTA
495614 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
495634 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
495654 TATCTCGTTGCGA
1 AATCGCGTTGCGA
495667 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:495700 original size:20 final size:20
Alignment explanation
Indices: 495675--495728 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
495665 GATTTTGTAT
495675 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
495695 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
495715 TATCGCATTGCGAT
1 TATCGCATTGCGAT
495729 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:495713 original size:61 final size:61
Alignment explanation
Indices: 495615--495731 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
495605 CGCTATGTAA
* * * * *
495615 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
495676 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
495732 CCCAATTCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:495747 original size:61 final size:61
Alignment explanation
Indices: 495615--495749 Score: 155
Period size: 61 Copynumber: 2.2 Consensus size: 61
495605 CGCTATGTAA
* * * * * ** *
495615 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* * *
495676 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
495738 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
495750 TTACTTATTC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
61 59 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:495839 original size:21 final size:21
Alignment explanation
Indices: 495799--495839 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
495789 ACTGTAGACC
**
495799 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
495820 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
495840 GTGACTAATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:497968 original size:16 final size:17
Alignment explanation
Indices: 497947--497989 Score: 70
Period size: 16 Copynumber: 2.5 Consensus size: 17
497937 AAGGATTGCT
497947 GAAAAGAGAAAAGAGC-
1 GAAAAGAGAAAAGAGCA
497963 GAAAAGAGAAAAGAGCA
1 GAAAAGAGAAAAGAGCA
497980 GGAAAAGAGA
1 -GAAAAGAGA
497990 GAAATCAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 16 0.64
18 9 0.36
ACGTcount: A:0.63, C:0.05, G:0.33, T:0.00
Consensus pattern (17 bp):
GAAAAGAGAAAAGAGCA
Found at i:498502 original size:101 final size:101
Alignment explanation
Indices: 498327--498529 Score: 388
Period size: 101 Copynumber: 2.0 Consensus size: 101
498317 AATTAGAGGC
*
498327 ATGCAGCTTGTAAAGGACTTGAGCTTATAGAACTCGAATTAGTAGTTGGCCTGTAATAAATCACT
1 ATGCAGCTTGTAAAGGACTTGAGCTTATAGAACTCGAATTAGTAGTTGGCCTGTAATAAATAACT
*
498392 TATTTCCATGGTTGCTTAACTCATTTTCTCTATGAT
66 TATTTCCATGGTTACTTAACTCATTTTCTCTATGAT
498428 ATGCAGCTTGTAAAGGACTTGAGCTTATAGAACTCGAATTAGTAGTTGGCCTGTAATAAATAACT
1 ATGCAGCTTGTAAAGGACTTGAGCTTATAGAACTCGAATTAGTAGTTGGCCTGTAATAAATAACT
498493 TATTTCCATGGTTACTTAACTCATTTTCTCTATGAT
66 TATTTCCATGGTTACTTAACTCATTTTCTCTATGAT
498529 A
1 A
498530 ACAACTTCCA
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 100 1.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (101 bp):
ATGCAGCTTGTAAAGGACTTGAGCTTATAGAACTCGAATTAGTAGTTGGCCTGTAATAAATAACT
TATTTCCATGGTTACTTAACTCATTTTCTCTATGAT
Found at i:501416 original size:22 final size:22
Alignment explanation
Indices: 501365--501429 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
501355 TTTACTTACC
*
501365 ACATATTAATAAA-AAATAAAT
1 ACATATTTATAAAGAAATAAAT
*
501386 ATATGATTTATAAAGAAATATAAT
1 ACAT-ATTTATAAAGAAATA-AAT
501410 -CATATTTATAATAGAAATAA
1 ACATATTTATAA-AGAAATAA
501430 TTGAAGAATG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 3 0.08
22 17 0.46
23 14 0.38
24 3 0.08
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (22 bp):
ACATATTTATAAAGAAATAAAT
Found at i:506453 original size:3 final size:3
Alignment explanation
Indices: 506445--506490 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
506435 CAATACAAAT
506445 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
506491 ACTAATTAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:509754 original size:18 final size:18
Alignment explanation
Indices: 509731--509799 Score: 93
Period size: 18 Copynumber: 3.8 Consensus size: 18
509721 AATGGTTGCA
*
509731 AGAACATTCTTCATTTCT
1 AGAACAGTCTTCATTTCT
*
509749 AGAACAATCTTCATTTCT
1 AGAACAGTCTTCATTTCT
* *
509767 TGAGCAGTCTTCATTTCT
1 AGAACAGTCTTCATTTCT
*
509785 AGAGCAGTCTTCATT
1 AGAACAGTCTTCATT
509800 CTTTTCTCAG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.41
Consensus pattern (18 bp):
AGAACAGTCTTCATTTCT
Found at i:510610 original size:54 final size:54
Alignment explanation
Indices: 510543--511129 Score: 482
Period size: 54 Copynumber: 10.8 Consensus size: 54
510533 AGAAACCCAA
* *
510543 AAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAGACATCAAGAAAACCCT
1 AAAAATCAGGCTTAGCTTCTTTCAAAATTCATTTGAAGACATCAAGAAAACCCT
* * *
510597 AAAAATCATGCTTAGC-TCATTTCCAAAATTCATTTGATGACATCAAGAAACCCCT
1 AAAAATCAGGCTTAGCTTC-TTT-CAAAATTCATTTGAAGACATCAAGAAAACCCT
* * *
510652 AAAAATTAGGCTTAGCTTCTTTCAAAATTCGTTTGAAGACATCAA-AAAACTCAT
1 AAAAATCAGGCTTAGCTTCTTTCAAAATTCATTTGAAGACATCAAGAAAAC-CCT
* * * * * * *
510706 GAAAATCAAGCTTAGCTCCTTTCCAAATCCATTTTTAA-ACATCAAGAAACCCCT
1 AAAAATCAGGCTTAGCTTCTTTCAAAATTCA-TTTGAAGACATCAAGAAAACCCT
* * * *
510760 GAAAATCAGGCTTAGCTCCTTTCCAAATCCATTTGTAA-ACATCAAG-AAACCCAT
1 AAAAATCAGGCTTAGCTTCTTTCAAAATTCATTTG-AAGACATCAAGAAAACCC-T
* * *
510814 AAAAATTAGGCTTAGC-TCATCTGAAAA-TCATTTGAAGAAATCATCAAG-AAACTTACC-
1 AAAAATCAGGCTTAGCTTC-TTTCAAAATTCATTTGAAG--A-CATCAAGAAAAC---CCT
* * * * * * *
510871 GAAAATC-GGACATAGCTCCTTTAAAAATTCATTTGAAAACATAAAG-AAACCTTT
1 AAAAATCAGG-CTTAGCTTCTTTCAAAATTCATTTGAAGACATCAAGAAAACC-CT
* * * * *
510925 GAAAATCAGGCTTAGCTCCTTTGAAAATTCATTTGAAAACATCAAGAAACCCCT
1 AAAAATCAGGCTTAGCTTCTTTCAAAATTCATTTGAAGACATCAAGAAAACCCT
* * * * * *
510979 AAAAATTAAGCTTAGCTTATTTTAAAATTCATTTGAAGACATTAAGAAACCCCT
1 AAAAATCAGGCTTAGCTTCTTTCAAAATTCATTTGAAGACATCAAGAAAACCCT
* * * *
511033 GAAAAA-CAGACTTAGC-TCTTTTAAAAATTCATTTGAAAACATCAAGAAACCCCT
1 -AAAAATCAGGCTTAGCTTC-TTTCAAAATTCATTTGAAGACATCAAGAAAACCCT
* * * * *
511087 GAAAATCAAGCTTAGCTCCTTT-AACATTCATTTGAAAACATCA
1 AAAAATCAGGCTTAGCTTCTTTCAAAATTCATTTGAAGACATCA
511130 TATTGTTTGG
Statistics
Matches: 441, Mismatches: 65, Indels: 55
0.79 0.12 0.10
Matches are distributed among these distances:
52 3 0.01
53 46 0.10
54 270 0.61
55 78 0.18
56 16 0.04
57 16 0.04
58 10 0.02
59 2 0.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.28
Consensus pattern (54 bp):
AAAAATCAGGCTTAGCTTCTTTCAAAATTCATTTGAAGACATCAAGAAAACCCT
Found at i:510782 original size:108 final size:107
Alignment explanation
Indices: 510544--511129 Score: 556
Period size: 108 Copynumber: 5.4 Consensus size: 107
510534 GAAACCCAAA
* * * * *
510544 AAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAGACATCAAGAAAACCCTAAAAATCATGCT
1 AAAATCAGGCTTAGCTCCTTTAAAAATTCATTTGAAGACATCAA-AAAACCATGAAAATCAAGCT
** *
510609 TAGCTCATTTCCAAAATTCATTTGATGACATCAAGAAACCCCTA
65 TAGCTCATTT-CAAAATTCATTTGAAAACATCAAGAAACCCCTG
* * * *
510653 AAAATTAGGCTTAGCTTCTTTCAAAATTCGTTTGAAGACATCAAAAAACTCATGAAAATCAAGCT
1 AAAATCAGGCTTAGCTCCTTTAAAAATTCATTTGAAGACATCAAAAAAC-CATGAAAATCAAGCT
* * * **
510718 TAGCTCCTTTCCAAATCCATTTTTAAACATCAAGAAACCCCTG
65 TAGCTCATTTCAAAATTCATTTGAAAACATCAAGAAACCCCTG
** * * * * *
510761 AAAATCAGGCTTAGCTCCTTTCCAAATCCATTTGTAA-ACATCAAGAAACCCATAAAAATTAGGC
1 AAAATCAGGCTTAGCTCCTTTAAAAATTCATTTG-AAGACATCAA-AAAACCATGAAAATCAAGC
* * *
510825 TTAGCTCATCTGAAAA-TCATTTGAAGAAATCATCAAGAAACTTACC-G
64 TTAGCTCATTTCAAAATTCATTTG-A-AAA-CATCAAGAAAC--CCCTG
* * * *
510872 AAAATC-GGACATAGCTCCTTTAAAAATTCATTTGAAAACAT-AAAGAAACCTTTGAAAATCAGG
1 AAAATCAGG-CTTAGCTCCTTTAAAAATTCATTTGAAGACATCAAA-AAACC-ATGAAAATCAAG
* * *
510935 CTTAGCTCCTTTGAAAATTCATTTGAAAACATCAAGAAACCCCTA
63 CTTAGCTCATTTCAAAATTCATTTGAAAACATCAAGAAACCCCTG
* * ** * * * * *
510980 AAAATTAAGCTTAGCTTATTTTAAAATTCATTTGAAGACATTAAGAAACCCCTGAAAAAC-AGAC
1 AAAATCAGGCTTAGCTCCTTTAAAAATTCATTTGAAGACATCAA-AAAACCATGAAAATCAAG-C
* *
511044 TTAGCTCTTTTAAAAATTCATTTGAAAACATCAAGAAACCCCTG
64 TTAGCTCATTTCAAAATTCATTTGAAAACATCAAGAAACCCCTG
* * *
511088 AAAATCAAGCTTAGCTCCTTT-AACATTCATTTGAAAACATCA
1 AAAATCAGGCTTAGCTCCTTTAAAAATTCATTTGAAGACATCA
511130 TATTGTTTGG
Statistics
Matches: 397, Mismatches: 62, Indels: 38
0.80 0.12 0.08
Matches are distributed among these distances:
107 26 0.07
108 189 0.48
109 91 0.23
110 25 0.06
111 57 0.14
112 9 0.02
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.28
Consensus pattern (107 bp):
AAAATCAGGCTTAGCTCCTTTAAAAATTCATTTGAAGACATCAAAAAACCATGAAAATCAAGCTT
AGCTCATTTCAAAATTCATTTGAAAACATCAAGAAACCCCTG
Found at i:511120 original size:273 final size:273
Alignment explanation
Indices: 510621--511130 Score: 639
Period size: 273 Copynumber: 1.9 Consensus size: 273
510611 GCTCATTTCC
** * * * *
510621 AAAATTCATTTGATGACATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCGTTT
1 AAAATTCATTTGAAAACATAAAGAAACCCCTAAAAATCAGGCTTAGCTCCTTTCAAAATTCATTT
* * * * * *
510686 GAAGACATCAAAAAACTCATGAAAATCAAGCTTAGCTCCTTTCCAAATCCATTTTTAAACATCAA
66 GAAAACATCAAAAAACCCATAAAAATCAAGCTTAGCTCATTTCAAAATCCATTTTGAAACATCAA
* * ** *
510751 GAAACCCCTGAAAATCAGGCTTAGCTCCTTTCCAAATCCATTTGTAAACATCAAGAAACCCATAA
131 GAAACCCCTGAAAAACAGACTTAGCTCCTTTAAAAATCCATTTGAAAACATCAAGAAACCCATAA
* *
510816 AAATTAGGCTTAGCTCATCTGAAAATCATTTGAAGAA-ATCATCAAGAAACTTACCGAAAATCGG
196 AAATCAAGCTTAGCTCATCTGAAAATCATTTGAA-AACATCATCAAGAAACTTACCGAAAATCGG
510880 ACATAGCTCCTTTA
260 ACATAGCTCCTTTA
** * *
510894 AAAATTCATTTGAAAACATAAAGAAACCTTTGAAAATCAGGCTTAGCTCCTTTGAAAATTCATTT
1 AAAATTCATTTGAAAACATAAAGAAACCCCTAAAAATCAGGCTTAGCTCCTTTCAAAATTCATTT
* * * * * * *
510959 GAAAACATCAAGAAACCCCTAAAAATTAAGCTTAGCTTATTTTAAAATTCA-TTTGAAGACATTA
66 GAAAACATCAAAAAACCCATAAAAATCAAGCTTAGCTCATTTCAAAATCCATTTTGAA-ACATCA
* * * *
511023 AGAAACCCCTGAAAAACAGACTTAGCTCTTTTAAAAATTCATTTGAAAACATCAAGAAACCCCTG
130 AGAAACCCCTGAAAAACAGACTTAGCTCCTTTAAAAATCCATTTGAAAACATCAAGAAACCCATA
* * *
511088 AAAATCAAGCTTAGCTCCT-TTAACATTCATTTGAAAACATCAT
195 AAAATCAAGCTTAGCTCATCTGAA-AATCATTTGAAAACATCAT
511131 ATTGTTTGGG
Statistics
Matches: 197, Mismatches: 37, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
272 10 0.05
273 187 0.95
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.28
Consensus pattern (273 bp):
AAAATTCATTTGAAAACATAAAGAAACCCCTAAAAATCAGGCTTAGCTCCTTTCAAAATTCATTT
GAAAACATCAAAAAACCCATAAAAATCAAGCTTAGCTCATTTCAAAATCCATTTTGAAACATCAA
GAAACCCCTGAAAAACAGACTTAGCTCCTTTAAAAATCCATTTGAAAACATCAAGAAACCCATAA
AAATCAAGCTTAGCTCATCTGAAAATCATTTGAAAACATCATCAAGAAACTTACCGAAAATCGGA
CATAGCTCCTTTA
Found at i:511667 original size:196 final size:196
Alignment explanation
Indices: 511333--511727 Score: 754
Period size: 196 Copynumber: 2.0 Consensus size: 196
511323 TATGCATCAA
*
511333 TATGTAATGCATGCTATTCTTATATACATAAATGTTGATCATTAATTCTTCTTCTGGCTTCAAAG
1 TATGTAATACATGCTATTCTTATATACATAAATGTTGATCATTAATTCTTCTTCTGGCTTCAAAG
*
511398 TGGAGAACTCAATCTTCTTTCACTTGAACATTCTTGAATGAATCCTCCGTCAATGGCAACTTATT
66 TAGAGAACTCAATCTTCTTTCACTTGAACATTCTTGAATGAATCCTCCGTCAATGGCAACTTATT
*
511463 AGCCTAAGCTTGTATCTTATGAGGAGTAACCTGATTATCTTGTGTGGTCATATCTTTCATGTCTT
131 AGCCTAAGCTTGCATCTTATGAGGAGTAACCTGATTATCTTGTGTGGTCATATCTTTCATGTCTT
511528 C
196 C
511529 TATGTAATACATGCTATTCTTATATACATAAATGTTGATCATTAATTCTTCTTCTGGCTTCAAAG
1 TATGTAATACATGCTATTCTTATATACATAAATGTTGATCATTAATTCTTCTTCTGGCTTCAAAG
511594 TAGAGAACTCAATCTTCTTTCACTTGAACATTCTTGAATGAATCCTCCGTCAATGGCAACTTATT
66 TAGAGAACTCAATCTTCTTTCACTTGAACATTCTTGAATGAATCCTCCGTCAATGGCAACTTATT
*
511659 AGCCTAAGCTTGCATCTTATGAGGAGTAACCTGATTATCTTGTGTGGTCATGTCTTTCATGTCTT
131 AGCCTAAGCTTGCATCTTATGAGGAGTAACCTGATTATCTTGTGTGGTCATATCTTTCATGTCTT
511724 C
196 C
511725 TAT
1 TAT
511728 CTTTGGTTTC
Statistics
Matches: 195, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
196 195 1.00
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (196 bp):
TATGTAATACATGCTATTCTTATATACATAAATGTTGATCATTAATTCTTCTTCTGGCTTCAAAG
TAGAGAACTCAATCTTCTTTCACTTGAACATTCTTGAATGAATCCTCCGTCAATGGCAACTTATT
AGCCTAAGCTTGCATCTTATGAGGAGTAACCTGATTATCTTGTGTGGTCATATCTTTCATGTCTT
C
Found at i:512671 original size:28 final size:28
Alignment explanation
Indices: 512612--512678 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
512602 GAAGGTAGAG
*
512612 TGTTTCAGGTTAATTTGGGGAGGCAATG
1 TGTTTCAGGTTAATTTGGGGAGGCAATA
**
512640 TGTTTCAGGTTAATTTGGGGAGGTTATA
1 TGTTTCAGGTTAATTTGGGGAGGCAATA
*
512668 TGTTTCTGGTT
1 TGTTTCAGGTT
512679 GGCTTCTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.18, C:0.06, G:0.33, T:0.43
Consensus pattern (28 bp):
TGTTTCAGGTTAATTTGGGGAGGCAATA
Found at i:514483 original size:12 final size:12
Alignment explanation
Indices: 514466--514502 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
514456 ATTGGTTTTC
514466 TTTTTTTCTTCT
1 TTTTTTTCTTCT
514478 TTTTTTTCTT-T
1 TTTTTTTCTTCT
514489 TTTTTCTT-TTCT
1 TTTTT-TTCTTCT
514501 TT
1 TT
514503 ATTCTCACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTTTCTTCT
Found at i:514486 original size:9 final size:9
Alignment explanation
Indices: 514461--514498 Score: 58
Period size: 9 Copynumber: 4.0 Consensus size: 9
514451 ACTTGATTGG
514461 TTTTCTTTTT
1 TTTTC-TTTT
514471 TTCTTCTTTT
1 TT-TTCTTTT
514481 TTTTCTTTT
1 TTTTCTTTT
514490 TTTTCTTTT
1 TTTTCTTTT
514499 CTTTATTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 16 0.59
10 8 0.30
11 3 0.11
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:514507 original size:21 final size:21
Alignment explanation
Indices: 514466--514507 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
514456 ATTGGTTTTC
*
514466 TTTTTTTCTTCTTTTTTTTCT
1 TTTTTTTCTTCTTTTTATTCT
514487 TTTTTTTCTT-TTCTTTATTCT
1 TTTTTTTCTTCTT-TTTATTCT
514508 CACCTTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTTTCTTCTTTTTATTCT
Found at i:523356 original size:11 final size:10
Alignment explanation
Indices: 523334--523368 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
523324 CAGCAGTTCG
523334 AAAAAGAAAA
1 AAAAAGAAAA
523344 AAAAAGAAGAA
1 AAAAAGAA-AA
523355 AAAAAGAAAA
1 AAAAAGAAAA
523365 AAAA
1 AAAA
523369 TGTTGTTCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:523384 original size:46 final size:46
Alignment explanation
Indices: 523304--523414 Score: 118
Period size: 46 Copynumber: 2.3 Consensus size: 46
523294 AAAAAGTAAT
523304 AAGAAAAAAAGAAAAAAAAACAGCAGTTCGAAAAAGA-AAAAAAAAG
1 AAGAAAAAAAG-AAAAAAAACAGCAGTTCGAAAAAGAGAAAAAAAAG
* ** *
523350 AAGAAAAAAAGAAAAAAAA-TGTTGTTCGAAAAAAAGAGAGAAAAAAG
1 AAGAAAAAAAGAAAAAAAACAGCAGTTCG--AAAAAGAGAAAAAAAAG
*
523397 ACATGAAAAAATGAAAAA
1 A-A-GAAAAAAAGAAAAA
523415 CAAAACAACA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
44 6 0.11
45 8 0.15
46 18 0.33
47 9 0.16
48 1 0.02
49 13 0.24
ACGTcount: A:0.71, C:0.05, G:0.16, T:0.08
Consensus pattern (46 bp):
AAGAAAAAAAGAAAAAAAACAGCAGTTCGAAAAAGAGAAAAAAAAG
Found at i:524498 original size:28 final size:29
Alignment explanation
Indices: 524456--524511 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
524446 AAGCTATCTC
*
524456 TTTTATTTTACTTTTCAAGTT-TTTTTAT
1 TTTTATTTTACTTTTCAACTTGTTTTTAT
524484 TTTTACTTTTA-TTTTCAACTTGTTTTTA
1 TTTTA-TTTTACTTTTCAACTTGTTTTTA
524512 AATATGATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.18, C:0.09, G:0.04, T:0.70
Consensus pattern (29 bp):
TTTTATTTTACTTTTCAACTTGTTTTTAT
Found at i:528638 original size:20 final size:20
Alignment explanation
Indices: 528615--528664 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
528605 GTTCATACAG
*
528615 TATCGATATTGTAAGAACAA
1 TATCGATACTGTAAGAACAA
528635 TATCGATACTGTAAGAACAA
1 TATCGATACTGTAAGAACAA
*
528655 TATCGGTACT
1 TATCGATACT
528665 ACGTACCCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (20 bp):
TATCGATACTGTAAGAACAA
Found at i:529039 original size:17 final size:18
Alignment explanation
Indices: 528999--529041 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
528989 AATGTACTAA
**
528999 AATTAATAATACAAATTT
1 AATTAATAATACAAAACT
529017 AA-TAATAATA-AAAACT
1 AATTAATAATACAAAACT
529033 AATTAATAA
1 AATTAATAA
529042 CTTAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 14 0.64
18 2 0.09
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTAATAATACAAAACT
Found at i:542101 original size:37 final size:36
Alignment explanation
Indices: 542059--542156 Score: 98
Period size: 38 Copynumber: 2.8 Consensus size: 36
542049 TCATTAAACC
542059 ATTTTATATTTTCAATTTTGTAAAAAAAATTATATAA
1 ATTTTATATTTTCAATTTTGTAAAAAAAA-TATATAA
* * * *
542096 ATTTTATGAATTTAAATTTTTTAAAGAAAATATATAA
1 ATTTTAT-ATTTTCAATTTTGTAAAAAAAATATATAA
*
542133 A---TAT-TTTTCAA-TTTGTTAAAAAAA
1 ATTTTATATTTTCAATTTTGTAAAAAAAA
542157 CAAATATATA
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
31 10 0.20
32 5 0.10
34 3 0.06
37 15 0.29
38 18 0.35
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (36 bp):
ATTTTATATTTTCAATTTTGTAAAAAAAATATATAA
Found at i:542146 original size:38 final size:38
Alignment explanation
Indices: 542059--542146 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 38
542049 TCATTAAACC
* *
542059 ATTTTAT-ATTTTCAATTTTGTAAAAAAAATTATATAA
1 ATTTTATCAATTTAAATTTTGTAAAAAAAATTATATAA
* * *
542096 ATTTTATGAATTTAAATTTTTTAAAGAAAA-TATATAA
1 ATTTTATCAATTTAAATTTTGTAAAAAAAATTATATAA
*
542133 ATATTTTTCAATTT
1 AT-TTTATCAATTT
542147 GTTAAAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
37 16 0.37
38 27 0.63
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.50
Consensus pattern (38 bp):
ATTTTATCAATTTAAATTTTGTAAAAAAAATTATATAA
Found at i:542316 original size:20 final size:19
Alignment explanation
Indices: 542287--542326 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
542277 AATAATCTTA
*
542287 TTCCCTGATAATCTTTTAT
1 TTCCCTGATAATCTTATAT
542306 TTCCACTGATAATCTTATAT
1 TTCC-CTGATAATCTTATAT
542326 T
1 T
542327 ATGTGAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (19 bp):
TTCCCTGATAATCTTATAT
Found at i:542323 original size:18 final size:17
Alignment explanation
Indices: 542278--542323 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 17
542268 AACATTCTCA
542278 ATAATCTTA-TTCCCTG
1 ATAATCTTATTTCCCTG
542294 ATAATCTTTTATTTCCACTG
1 ATAATC--TTATTTCC-CTG
542314 ATAATCTTAT
1 ATAATCTTAT
542324 ATTATGTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 6 0.23
18 7 0.27
19 4 0.15
20 9 0.35
ACGTcount: A:0.28, C:0.20, G:0.04, T:0.48
Consensus pattern (17 bp):
ATAATCTTATTTCCCTG
Found at i:542670 original size:34 final size:34
Alignment explanation
Indices: 542613--542677 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
542603 TAAGATATCG
* *
542613 AATTCTAATGTTTTTTTTATTAGAATTTTATTGT
1 AATTCTAATGTTTTTGTTATTAGAATGTTATTGT
*
542647 AATTGTAATTGTTTTTGTT-TTAGAATGTTAT
1 AATTCTAA-TGTTTTTGTTATTAGAATGTTAT
542678 ATATAAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 18 0.67
35 9 0.33
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (34 bp):
AATTCTAATGTTTTTGTTATTAGAATGTTATTGT
Found at i:543462 original size:53 final size:51
Alignment explanation
Indices: 543401--543657 Score: 160
Period size: 53 Copynumber: 5.5 Consensus size: 51
543391 ATTCATACAC
543401 TATAAACATATAAAATATATGTTTCAAATTTGCTATATAAGTTTTTTTAACA
1 TATAAACATATAAAATATATGTTTCAAATTT-CTATATAAGTTTTTTTAACA
* * * *
543453 TATAGAACATATAAAATATATGTTT--AATATTC-ATA-CA---CTATAAACA
1 TATA-AACATATAAAATATATGTTTCAAAT-TTCTATATAAGTTTTTTTAACA
543499 TAT----A-A-A--ATATATGTTTCAAATTTACTATATAAGTTTTTTTAACA
1 TATAAACATATAAAATATATGTTTCAAATTT-CTATATAAGTTTTTTTAACA
* * * *
543543 TATAGAACATATAAAATATATGTTT--AATATTC-ATA-CA---CTATAAACA
1 TATA-AACATATAAAATATATGTTTCAAAT-TTCTATATAAGTTTTTTTAACA
543589 TAT----A-A-A--ATATATGTTTCAAATTTACTATATAAGTTTTTTTAACA
1 TATAAACATATAAAATATATGTTTCAAATTT-CTATATAAGTTTTTTTAACA
543633 TATAGAACATATAAAATATATGTTT
1 TATA-AACATATAAAATATATGTTT
543658 AATATTCATA
Statistics
Matches: 152, Mismatches: 16, Indels: 73
0.63 0.07 0.30
Matches are distributed among these distances:
37 20 0.13
38 4 0.03
39 10 0.07
40 8 0.05
41 4 0.03
44 18 0.12
46 18 0.12
49 4 0.03
50 8 0.05
51 10 0.07
52 8 0.05
53 40 0.26
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (51 bp):
TATAAACATATAAAATATATGTTTCAAATTTCTATATAAGTTTTTTTAACA
Found at i:543490 original size:90 final size:90
Alignment explanation
Indices: 543388--543876 Score: 923
Period size: 90 Copynumber: 5.5 Consensus size: 90
543378 TGATATATTC
*
543388 AATATTCATACACTATAAACATATAAAATATATGTTTCAAATTTGCTATATAAGTTTTTTTAACA
1 AATATTCATACACTATAAACATATAAAATATATGTTTCAAATTTACTATATAAGTTTTTTTAACA
543453 TATAGAACATATAAAATATATGTTT
66 TATAGAACATATAAAATATATGTTT
543478 AATATTCATACACTATAAACATATAAAATATATGTTTCAAATTTACTATATAAGTTTTTTTAACA
1 AATATTCATACACTATAAACATATAAAATATATGTTTCAAATTTACTATATAAGTTTTTTTAACA
543543 TATAGAACATATAAAATATATGTTT
66 TATAGAACATATAAAATATATGTTT
543568 AATATTCATACACTATAAACATATAAAATATATGTTTCAAATTTACTATATAAGTTTTTTTAACA
1 AATATTCATACACTATAAACATATAAAATATATGTTTCAAATTTACTATATAAGTTTTTTTAACA
543633 TATAGAACATATAAAATATATGTTT
66 TATAGAACATATAAAATATATGTTT
543658 AATATTCATACACTATAAACATATAAAATATATGTTTCAAATTTACTATATAAG--TTTTTAACA
1 AATATTCATACACTATAAACATATAAAATATATGTTTCAAATTTACTATATAAGTTTTTTTAACA
*
543721 TATACAACATATAAAATATATGTTT
66 TATAGAACATATAAAATATATGTTT
543746 AATATTCATACACTATAAACATATAAAATATATGTTTCAAATTTACTATATAAG--TTTTTAACA
1 AATATTCATACACTATAAACATATAAAATATATGTTTCAAATTTACTATATAAGTTTTTTTAACA
*
543809 TATACAACATATAAAATATATGTTT
66 TATAGAACATATAAAATATATGTTT
543834 AATATTCATACACTATAAACATATAAAATATATGTTTCAAATT
1 AATATTCATACACTATAAACATATAAAATATATGTTTCAAATT
543877 ATATGATATA
Statistics
Matches: 397, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
88 164 0.41
90 233 0.59
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (90 bp):
AATATTCATACACTATAAACATATAAAATATATGTTTCAAATTTACTATATAAGTTTTTTTAACA
TATAGAACATATAAAATATATGTTT
Found at i:544221 original size:17 final size:17
Alignment explanation
Indices: 544194--544232 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
544184 AATTTACAAT
544194 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
544210 TAATTATAAATAATATC
1 TAATTATAAATAATATC
544227 TAATTA
1 TAATTA
544233 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:554341 original size:18 final size:18
Alignment explanation
Indices: 554296--554343 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
554286 AGTGGTAGGT
* **
554296 GTATGCTCAATATGCTTT
1 GTATGCTCAATACGCTCA
**
554314 GTATATTCAATACGCTCA
1 GTATGCTCAATACGCTCA
554332 GTATGCTCAATA
1 GTATGCTCAATA
554344 AGATCAGAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (18 bp):
GTATGCTCAATACGCTCA
Found at i:554976 original size:2 final size:2
Alignment explanation
Indices: 554969--555005 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
554959 CCAAAATCTC
554969 AT AT AT AT AT 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 AT AT AT AT AT A
555006 AAACCAATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:555479 original size:29 final size:29
Alignment explanation
Indices: 555453--555529 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
555443 TTAGAACGAG
* *
555453 GAATTAATCCCATGTATAATCAAAACGGA
1 GAATTAATCCCATGCAGAATCAAAACGGA
* * *
555482 GAATTAATCCCATACAGAATCAGAACGGT
1 GAATTAATCCCATGCAGAATCAAAACGGA
555511 GAATTAATCCCATGCAGAA
1 GAATTAATCCCATGCAGAA
555530 AAAGAACGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (29 bp):
GAATTAATCCCATGCAGAATCAAAACGGA
Found at i:555535 original size:29 final size:29
Alignment explanation
Indices: 555445--555543 Score: 103
Period size: 29 Copynumber: 3.4 Consensus size: 29
555435 ATACAGAGTT
* * *
555445 AGAACGAG-GAATTAATCCCATGTATAATCA
1 AGAACG-GTGAATTAATCCCATGCAGAA-AA
* * **
555475 A-AACGGAGAATTAATCCCATACAGAATC
1 AGAACGGTGAATTAATCCCATGCAGAAAA
555503 AGAACGGTGAATTAATCCCATGCAGAAAA
1 AGAACGGTGAATTAATCCCATGCAGAAAA
555532 AGAACGGTGAAT
1 AGAACGGTGAAT
555544 ATGCAGAATA
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 2 0.03
29 55 0.95
30 1 0.02
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.19
Consensus pattern (29 bp):
AGAACGGTGAATTAATCCCATGCAGAAAA
Found at i:555538 original size:58 final size:58
Alignment explanation
Indices: 555426--555543 Score: 141
Period size: 58 Copynumber: 2.0 Consensus size: 58
555416 AGAATGAAGC
* * * * * *
555426 ATTAATCTCATACAGAGTTAGAACGAGGAATTAATCCCATGTATAATCAAAACGGAGA
1 ATTAATCCCATACAGAATCAGAACGAGGAATTAATCCCATGCAGAATAAAAACGGAGA
*
555484 ATTAATCCCATACAGAATCAGAACG-GTGAATTAATCCCATGCAGAA-AAAGAACGGTGA
1 ATTAATCCCATACAGAATCAGAACGAG-GAATTAATCCCATGCAGAATAAA-AACGGAGA
555542 AT
1 AT
555544 ATGCAGAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
57 3 0.06
58 48 0.94
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.22
Consensus pattern (58 bp):
ATTAATCCCATACAGAATCAGAACGAGGAATTAATCCCATGCAGAATAAAAACGGAGA
Found at i:556557 original size:22 final size:21
Alignment explanation
Indices: 556522--556562 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
556512 GATAATTCTG
556522 AGATAATTCTTAAAAGATAAAA
1 AGATAATTCTT-AAAGATAAAA
556544 AGATAATT-TCTAAAGATAA
1 AGATAATTCT-TAAAGATAA
556563 TTCTAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.29
Consensus pattern (21 bp):
AGATAATTCTTAAAGATAAAA
Found at i:556560 original size:13 final size:14
Alignment explanation
Indices: 556541--556576 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
556531 TTAAAAGATA
556541 AAAAGATAATTTCT
1 AAAAGATAATTTCT
556555 -AAAGATAA-TTCT
1 AAAAGATAATTTCT
556567 AAAAGATAAT
1 AAAAGATAAT
556577 CCTAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.31
Consensus pattern (14 bp):
AAAAGATAATTTCT
Found at i:556575 original size:34 final size:33
Alignment explanation
Indices: 556509--556575 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
556499 ACTAAATCCT
*
556509 AAAGATAATTCTGAGATAATTCTTAAAAGATAA
1 AAAGATAATTCTAAGATAATTCTTAAAAGATAA
556542 AAAGATAATTTCTAAAGATAATTC-TAAAAGATAA
1 AAAGATAA-TTCT-AAGATAATTCTTAAAAGATAA
556576 TCCTAATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 8 0.26
34 14 0.45
35 9 0.29
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.30
Consensus pattern (33 bp):
AAAGATAATTCTAAGATAATTCTTAAAAGATAA
Found at i:556581 original size:13 final size:13
Alignment explanation
Indices: 556541--556581 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
556531 TTAAAAGATA
556541 AAAAGATAATTTCT
1 AAAAGATAA-TTCT
556555 -AAAGATAATTCT
1 AAAAGATAATTCT
*
556567 AAAAGATAATCCT
1 AAAAGATAATTCT
556580 AA
1 AA
556582 TTAAATTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.29
Consensus pattern (13 bp):
AAAAGATAATTCT
Found at i:557921 original size:263 final size:264
Alignment explanation
Indices: 557435--557964 Score: 1037
Period size: 263 Copynumber: 2.0 Consensus size: 264
557425 TCAAAGTCAG
557435 TGGGTCGGGTTGGTCAACGAGTCAACTGGTTTTGAATTGTCATAACACTCCCACACGTGCAAGGC
1 TGGGTCGGGTTGGTCAACGAGTCAACTGGTTTTGAATTGTCATAACACTCCCACACGTGCAAGGC
557500 GACGTGTAGGGGCGTGTGGGACACTGTCTGGCTATGGTTTTCGGATGAAAATTTTCAGAAAATTA
66 GACGTGTAGGGGCGTGTGGGACACTGTCTGGCTATGGTTTTCGGATGAAAATTTTCAGAAAATTA
557565 TTTTGGAGCATGGGGAATAACTTAGATAGGTCAGTTTGCAGAAAAGAACATCAAAATTAAGTTTT
131 TTTTGGAGCATGGGGAATAACTTAGATAGGTCAGTTTGCAGAAAAGAACATCAAAATTAAGTTTT
557630 TAACAAAACCCTAAACTTCTTCCCCCCTGATAAAGCT-ACATCAGCTGCAAACGAAAAACTGAGA
196 TAACAAAACCCTAAACTTCTTCCCCCCTGATAAAGCTAACATCAGCTGCAAACGAAAAACTGAGA
557694 CCAT
261 CCAT
557698 TGGGTCGGGTTGGTCAACGAGTCAACTGGTTTTGAATTGTCATAACACTCCCACACGTGCAAGGC
1 TGGGTCGGGTTGGTCAACGAGTCAACTGGTTTTGAATTGTCATAACACTCCCACACGTGCAAGGC
557763 GACGTGTAGGGGCGTGTGGGACACTGTCTGGCTATGGTTTTCGGATGAAAATTTTCAGAAAATTA
66 GACGTGTAGGGGCGTGTGGGACACTGTCTGGCTATGGTTTTCGGATGAAAATTTTCAGAAAATTA
557828 TTTTGGAGCATGGGGAATAACTTAGATAGGTCAGTTTGCAGAAAAGAACATCAAAAATTAAGTTT
131 TTTTGGAGCATGGGGAATAACTTAGATAGGTCAGTTTGCAGAAAAGAACATC-AAAATTAAGTTT
557893 TTAACAAAACCCTAAACTTCTT-CCCCCTGATAAAGCTAACATCAGCTGCAAACGAAAAACTGAG
195 TTAACAAAACCCTAAACTTCTTCCCCCCTGATAAAGCTAACATCAGCTGCAAACGAAAAACTGAG
557957 ACCAT
260 ACCAT
557962 TGG
1 TGG
557965 ATGAACGACG
Statistics
Matches: 265, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
263 197 0.74
264 68 0.26
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (264 bp):
TGGGTCGGGTTGGTCAACGAGTCAACTGGTTTTGAATTGTCATAACACTCCCACACGTGCAAGGC
GACGTGTAGGGGCGTGTGGGACACTGTCTGGCTATGGTTTTCGGATGAAAATTTTCAGAAAATTA
TTTTGGAGCATGGGGAATAACTTAGATAGGTCAGTTTGCAGAAAAGAACATCAAAATTAAGTTTT
TAACAAAACCCTAAACTTCTTCCCCCCTGATAAAGCTAACATCAGCTGCAAACGAAAAACTGAGA
CCAT
Found at i:558214 original size:28 final size:27
Alignment explanation
Indices: 558182--558252 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
558172 CAAATAAGAA
558182 AAGTGGGATGAC-CAACAACCAGTTGGTC
1 AAGTGGGATGACAC-ACAA-CAGTTGGTC
* *
558210 AAGTGGGATGAGACACTACAGTTGGTC
1 AAGTGGGATGACACACAACAGTTGGTC
* *
558237 TAGTGGGATGAGACAC
1 AAGTGGGATGACACAC
558253 TAGGTCCCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 24 0.62
28 14 0.36
29 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.32, T:0.20
Consensus pattern (27 bp):
AAGTGGGATGACACACAACAGTTGGTC
Found at i:558241 original size:27 final size:27
Alignment explanation
Indices: 558201--558254 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
558191 GACCAACAAC
558201 CAGTTGGTCAAGTGGGATGAGACACTA
1 CAGTTGGTCAAGTGGGATGAGACACTA
*
558228 CAGTTGGTCTAGTGGGATGAGACACTA
1 CAGTTGGTCAAGTGGGATGAGACACTA
558255 GGTCCCTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.24
Consensus pattern (27 bp):
CAGTTGGTCAAGTGGGATGAGACACTA
Found at i:558652 original size:19 final size:19
Alignment explanation
Indices: 558630--558935 Score: 290
Period size: 19 Copynumber: 15.1 Consensus size: 19
558620 AATGCGATTT
* *
558630 TCCAAATTCATTGCGATAG
1 TCCAAGTTCGTTGCGATAG
*
558649 TCCAAGTTCGCGTTGTGATAG
1 TCCAAGTT--CGTTGCGATAG
*
558670 TCCAAGTTCGTTGCAATAG
1 TCCAAGTTCGTTGCGATAG
*
558689 TCCAAGTTTGTTGCGATAG
1 TCCAAGTTCGTTGCGATAG
* *
558708 TCGAAGTTCACGTTGCGATTTAT
1 TCCAAGTT--CGTTGCGA--TAG
558731 TCCAAGTTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAG
** *
558750 TTGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTT--CGTTGCGA--TAG
558773 TCCAAGTTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAG
558792 TCCAAGTTCGCGTTGCGATAG
1 TCCAAGTT--CGTTGCGATAG
558813 TCCAAGTTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAG
*
558832 TCCAAGTTCGCGTTGCGATTTAT
1 TCCAAGTT--CGTTGCGA--TAG
*
558855 TCCAAATTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAG
558874 TCCAAGTTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAG
*
558893 TCGAAGTTCGCGTTGCGATTTA-
1 TCCAAGTT--CGTTGCGA--TAG
*
558915 TCCCAAATTCGTTGCGATAG
1 T-CCAAGTTCGTTGCGATAG
558935 T
1 T
558936 TCAAAATCGC
Statistics
Matches: 240, Mismatches: 25, Indels: 43
0.78 0.08 0.14
Matches are distributed among these distances:
19 106 0.44
20 1 0.00
21 99 0.41
22 1 0.00
23 33 0.14
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (19 bp):
TCCAAGTTCGTTGCGATAG
Found at i:558744 original size:42 final size:42
Alignment explanation
Indices: 558649--558890 Score: 320
Period size: 42 Copynumber: 5.9 Consensus size: 42
558639 ATTGCGATAG
* * *
558649 TCCAAGTTCGCGTTGTGATAGTCCAAGTT--CGTTGC-A-ATAG
1 TCCAAGTT--CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
* * *
558689 TCCAAGTTTGTTGCGATAGTCGAAGTTCACGTTGCGATTTAT
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
**
558731 TCCAAGTTCGTTGCGATAGTTGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
*
558773 TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGA--TAG
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
558813 TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
*
558855 TCCAAATTCGTTGCGATAGTCCAAGTT--CGTTGCGAT
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGAT
558891 AGTCGAAGTT
Statistics
Matches: 183, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
38 16 0.09
40 62 0.34
41 1 0.01
42 104 0.57
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.35
Consensus pattern (42 bp):
TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
Found at i:558757 original size:61 final size:61
Alignment explanation
Indices: 558630--558935 Score: 372
Period size: 61 Copynumber: 5.0 Consensus size: 61
558620 AATGCGATTT
* * * * *
558630 TCCAAATTCATTGCGATAGTCCAAGTTCGCGTTGTGA--TAGTCCAAGTTCGTTGCAATAG
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
* * *
558689 TCCAAGTTTGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAGTTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
** * *
558750 TTGAAGTTCGCGTTGCGATTTATTCCAAGTT--CGTTGCGA--TAGTCCAAGTTCGCGTTGCGAT
1 TCCAAGTT--CGTTGCGA--TAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTT--CGTTGCGAT
558811 AG
60 AG
*
558813 TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
* * *
558874 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATCCCAAATTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
558935 T
1 T
558936 TCAAAATCGC
Statistics
Matches: 214, Mismatches: 21, Indels: 22
0.83 0.08 0.09
Matches are distributed among these distances:
59 41 0.19
61 123 0.57
63 41 0.19
65 9 0.04
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (61 bp):
TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
Found at i:558858 original size:124 final size:121
Alignment explanation
Indices: 558649--558911 Score: 361
Period size: 124 Copynumber: 2.1 Consensus size: 121
558639 ATTGCGATAG
* * *
558649 TCCAAGTTCGCGTTGTGATAGTCCAAGTTCGTTGCAATAGTCCAAGTTTGTTGCGATAGTCGAAG
1 TCCAAGTTC-CGTTGCGATAGTCCAAGTTCGTTGCAATAGTCCAAGTTCGTTGCGATAGTCCAAG
* **
558714 TTCACGTTGCGATTTATTCCAAGTTCGTTGCGATAGTTGAAGTTCGCGTTGCGATTTAT
65 TTCACGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTT--CGTTGCGATTTAT
*
558773 TCCAAGTT-CGTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAGTTCGTTGCGATAGTCCAA
1 TCCAAGTTCCGTTGCGATAGTCCAAGTT--CGTTGCAATAGTCCAAGTTCGTTGCGATAGTCCAA
* *
558837 GTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGTTGCGA--TAG
64 GTTCACGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGTTGCGATTTAT
*
558893 TCGAAGTTCGCGTTGCGAT
1 TCCAAGTTC-CGTTGCGAT
558912 TTATCCCAAA
Statistics
Matches: 125, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
120 9 0.07
122 35 0.28
124 81 0.65
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (121 bp):
TCCAAGTTCCGTTGCGATAGTCCAAGTTCGTTGCAATAGTCCAAGTTCGTTGCGATAGTCCAAGT
TCACGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGTTGCGATTTAT
Found at i:558887 original size:143 final size:141
Alignment explanation
Indices: 558622--558935 Score: 447
Period size: 143 Copynumber: 2.2 Consensus size: 141
558612 ACTATTGCAA
* *
558622 TGCGA-TT-TTCCAAATTCATTGCGATAGTCCAAGTTCGCGTTGTGATAGTCCAAGTTCGTTGCA
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAGTTCGTTGCA
* * * *
558685 ATAGTCCAAGTTTGTTGCGATAGTCGAAGTTCACGTTGCGATTTATTCCAAGTTCGTTGCGATAG
66 ATAGTCCAAGTTCGTTGCGATAGTCCAAATT-ACGTTGCGA-TTAGTCCAAGTTCGTTGCGATAG
*
558750 TTGAAGTTCGCGT
129 TCGAAGTTCGCGT
* *
558763 TGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAGTTCGTTGCG
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAGTTCGTTGCA
*
558828 ATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT-CGTTGCGA-TAGTCCAAGTTCGTTGCGAT
66 ATAGTCCAAGTT--CGTTGCGA--TAGTCCAAATTACGTTGCGATTAGTCCAAGTTCGTTGCGAT
558891 AGTCGAAGTTCGCGT
127 AGTCGAAGTTCGCGT
*
558906 TGCGATTTATCCCAAATTCGTTGCGATAGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGT
558936 TCAAAATCGC
Statistics
Matches: 155, Mismatches: 12, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
141 5 0.03
142 2 0.01
143 125 0.81
145 15 0.10
147 8 0.05
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (141 bp):
TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAGTTCGTTGCA
ATAGTCCAAGTTCGTTGCGATAGTCCAAATTACGTTGCGATTAGTCCAAGTTCGTTGCGATAGTC
GAAGTTCGCGT
Found at i:558928 original size:82 final size:80
Alignment explanation
Indices: 558640--558932 Score: 301
Period size: 82 Copynumber: 3.6 Consensus size: 80
558630 TCCAAATTCA
* * * * * *
558640 TTGCGATAGTCCAAGTTCGCGTTGTGATAGTCCAAGTT-CGTTGC-A-ATAGTCCAAGTTTGTTG
1 TTGCGATAGTCCAAGTT--CGTTGCGATAGTCCAAATTCCGTTGCGATTTATTCCAAATTCGTTG
*
558702 CGATAGTCGAAGTTCACG
64 CGATAGTCCAAGTTC-CG
* ** * *
558720 TTGCGATTTATTCCAAGTTCGTTGCGATAGTTGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTT
1 TTGCGA--TAGTCCAAGTTCGTTGCGATAGTCCAAATTC-CGTTGCGATTTATTCCAAATTCGTT
558785 GCGATAGTCCAAGTTCGCG
63 GCGATAGTCCAAGTTC-CG
*
558804 TTGCGATAGTCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGC
1 TTGCGATAGTCCAAGTTCGTTGCGATAGTCCAAATTC-CGTTGCGATTTATTCCAAATTCGTTGC
558869 GATAGTCCAAGTT-CG
65 GATAGTCCAAGTTCCG
*
558884 TTGCGATAGTCGAAGTTCGCGTTGCGATTTA-TCCCAAATT-CGTTGCGAT
1 TTGCGATAGTCCAAGTT--CGTTGCGA--TAGT-CCAAATTCCGTTGCGAT
558933 AGTTCAAAAT
Statistics
Matches: 187, Mismatches: 15, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
80 40 0.21
82 101 0.54
83 2 0.01
84 44 0.24
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (80 bp):
TTGCGATAGTCCAAGTTCGTTGCGATAGTCCAAATTCCGTTGCGATTTATTCCAAATTCGTTGCG
ATAGTCCAAGTTCCG
Found at i:559820 original size:19 final size:19
Alignment explanation
Indices: 559796--559838 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
559786 CGTTGCGATT
559796 TTGGACTATCGCAACGAAC
1 TTGGACTATCGCAACGAAC
*
559815 TTGGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
559834 TTGGA
1 TTGGA
559839 AAAATGCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (19 bp):
TTGGACTATCGCAACGAAC
Found at i:565521 original size:20 final size:20
Alignment explanation
Indices: 565484--565523 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
565474 TGGATATTTT
* * *
565484 ATTATTTTTTTTAGAAAATC
1 ATTATATTTATTAAAAAATC
565504 ATTATATTTATTAAAAAATC
1 ATTATATTTATTAAAAAATC
565524 CTTTTTTCCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (20 bp):
ATTATATTTATTAAAAAATC
Found at i:565857 original size:21 final size:20
Alignment explanation
Indices: 565833--565872 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
565823 ATTAAATTGT
*
565833 AATTTAGGGATTTAAGGTTTG
1 AATTTAGGGAATT-AGGTTTG
*
565854 AATTTATGGAATTAGGTTT
1 AATTTAGGGAATTAGGTTT
565873 AGGAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (20 bp):
AATTTAGGGAATTAGGTTTG
Found at i:566321 original size:34 final size:34
Alignment explanation
Indices: 566283--566349 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
566273 CATTCATGAG
* *
566283 TAATTTTTCTATTATTGCATTCTTGGTCAGTAAT
1 TAATTTTTCTATCATCGCATTCTTGGTCAGTAAT
566317 TAATTTTTCTATCATCGCATTCTTGGTCAGTAA
1 TAATTTTTCTATCATCGCATTCTTGGTCAGTAA
566350 GACTGGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (34 bp):
TAATTTTTCTATCATCGCATTCTTGGTCAGTAAT
Found at i:569473 original size:20 final size:21
Alignment explanation
Indices: 569450--569510 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
569440 AAATAGTGTA
569450 TTTTTATTTATCTATATATT-
1 TTTTTATTTATCTATATATTC
569470 TTTTTATTTAT-TAT-TATTACC
1 TTTTTATTTATCTATATATT--C
569491 TTTTTATTTTAATCTATATA
1 TTTTTA-TTT-ATCTATATA
569511 GTTATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
18 4 0.12
19 3 0.09
20 11 0.32
21 6 0.18
22 3 0.09
23 2 0.06
24 3 0.09
25 2 0.06
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTATTTATCTATATATTC
Found at i:569688 original size:18 final size:18
Alignment explanation
Indices: 569651--569686 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
569641 GTATATGTGC
569651 ATATTTTTTCCATTTTTT
1 ATATTTTTTCCATTTTTT
*
569669 ATATTATTTTTCATTTTT
1 ATATT-TTTTCCATTTTT
569687 ATCTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.72
Consensus pattern (18 bp):
ATATTTTTTCCATTTTTT
Found at i:576686 original size:24 final size:24
Alignment explanation
Indices: 576642--576691 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
576632 ATAAAGAACC
*
576642 AAAATAAACTTAAATACACCATTA
1 AAAATAAACTTAAACACACCATTA
*
576666 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACACACCATTA
576690 AA
1 AA
576692 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.16, G:0.02, T:0.22
Consensus pattern (24 bp):
AAAATAAACTTAAACACACCATTA
Found at i:587981 original size:15 final size:15
Alignment explanation
Indices: 587956--588001 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
587946 CCCTAAATTG
587956 AAAAA-AAAAATGAA
1 AAAAAGAAAAATGAA
*
587970 AAAGAGAAAAATGAA
1 AAAAAGAAAAATGAA
587985 CAAAAAGAAAAA-GAA
1 -AAAAAGAAAAATGAA
588000 AA
1 AA
588002 TAAGGTGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 6 0.21
15 12 0.43
16 10 0.36
ACGTcount: A:0.80, C:0.02, G:0.13, T:0.04
Consensus pattern (15 bp):
AAAAAGAAAAATGAA
Found at i:590954 original size:4 final size:4
Alignment explanation
Indices: 590947--590986 Score: 62
Period size: 4 Copynumber: 9.5 Consensus size: 4
590937 ATAGTGTATT
590947 TTTA TTTA TCTATA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA T-T-TA TTTA TTTA TTTA TTTA TTTA TTTA TT
590987 ATAATTACCT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 29 0.85
5 2 0.06
6 3 0.09
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:591247 original size:7 final size:7
Alignment explanation
Indices: 591230--591263 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
591220 TATCATTTTA
591230 TTTATTGT
1 TTTA-TGT
591238 TTTATGT
1 TTTATGT
591245 TTTATGT
1 TTTATGT
591252 TTTATGT
1 TTTATGT
591259 TTTAT
1 TTTAT
591264 TTCTATTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 22 0.85
8 4 0.15
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.74
Consensus pattern (7 bp):
TTTATGT
Found at i:592490 original size:27 final size:27
Alignment explanation
Indices: 592460--592514 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
592450 GTACTTAATT
592460 GATTCCCCTTTGGAATCAGTCTGGTAA
1 GATTCCCCTTTGGAATCAGTCTGGTAA
*
592487 GATTCCCCTTTGGAATCGGTCTGGTAA
1 GATTCCCCTTTGGAATCAGTCTGGTAA
592514 G
1 G
592515 CTCGTTGCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (27 bp):
GATTCCCCTTTGGAATCAGTCTGGTAA
Found at i:610256 original size:18 final size:18
Alignment explanation
Indices: 610233--610271 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
610223 ATACTGGTGC
610233 TGGCTGCGGCA-GCGGCGG
1 TGGCTGCGG-AGGCGGCGG
*
610251 TGGCTGTGGAGGCGGCGG
1 TGGCTGCGGAGGCGGCGG
610269 TGG
1 TGG
610272 TGGTTGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.05, C:0.21, G:0.59, T:0.15
Consensus pattern (18 bp):
TGGCTGCGGAGGCGGCGG
Found at i:616496 original size:84 final size:85
Alignment explanation
Indices: 616389--616543 Score: 206
Period size: 84 Copynumber: 1.8 Consensus size: 85
616379 GTATTATTCA
* * * **
616389 AAAACATCGAAAGCAATTTTGGTATCGGTACTCAAGGG-AGTATCGATACC-CAAGTGGGAGAGT
1 AAAACATCGAAAGCAATTTTGGTACCGATACTC-AGGGAAGTATCAATACCACAAAAGGGAGAGT
616452 ATCGATATTCAGATAACTTTT
65 ATCGATATTCAGATAACTTTT
* * * *
616473 AAAACATTGAATGCATTTTTGGTACCGATACTCTGGGAAGTATCAATACCACAAAAGGGAGAGTA
1 AAAACATCGAAAGCAATTTTGGTACCGATACTCAGGGAAGTATCAATACCACAAAAGGGAGAGTA
616538 TCGATA
66 TCGATA
616544 CCCAAATAGG
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
83 3 0.05
84 39 0.65
85 18 0.30
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.26
Consensus pattern (85 bp):
AAAACATCGAAAGCAATTTTGGTACCGATACTCAGGGAAGTATCAATACCACAAAAGGGAGAGTA
TCGATATTCAGATAACTTTT
Found at i:616555 original size:22 final size:23
Alignment explanation
Indices: 616507--616549 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
616497 CCGATACTCT
616507 GGGA-AGTATCAATACCACAAAA
1 GGGAGAGTATCAATACCACAAAA
*
616529 GGGAGAGTATCGATACC-CAAA
1 GGGAGAGTATCAATACCACAAA
616550 TAGGAGTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (23 bp):
GGGAGAGTATCAATACCACAAAA
Found at i:617643 original size:45 final size:45
Alignment explanation
Indices: 617546--617662 Score: 139
Period size: 45 Copynumber: 2.6 Consensus size: 45
617536 CATAGTTCAT
* * * *
617546 TTTGATTATTGGATTGCGAAAATTAAAATCAAAGGATTAGTTTCG
1 TTTGATTATTGGATTGTGAAAATTAAAATCAAAGGATCAGATTCC
* *
617591 TTCGATTATTGGATTGTGAAAATTAAAATCAAATGATCA-ATTCC
1 TTTGATTATTGGATTGTGAAAATTAAAATCAAAGGATCAGATTCC
*
617635 TTGTGATTATTGGGTTGCT-AAAATTAAA
1 TT-TGATTATTGGATTG-TGAAAATTAAA
617663 GGATTGTTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 5 0.08
45 56 0.90
46 1 0.02
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (45 bp):
TTTGATTATTGGATTGTGAAAATTAAAATCAAAGGATCAGATTCC
Found at i:619518 original size:21 final size:21
Alignment explanation
Indices: 619494--619534 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
619484 ACCTGAATTA
*
619494 AAAATTAAAAATAAA-ATAAAT
1 AAAA-TAAAAAGAAAGATAAAT
619515 AAAATAAAAAGAAAGATAAA
1 AAAATAAAAAGAAAGATAAA
619535 AATGGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (21 bp):
AAAATAAAAAGAAAGATAAAT
Found at i:619764 original size:2 final size:2
Alignment explanation
Indices: 619747--619838 Score: 95
Period size: 2 Copynumber: 47.5 Consensus size: 2
619737 TTTTTTAAAC
* *
619747 TA TA T- TA TA T- TA TA TA TA TA TA TA T- TCA AA AA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
* *
619786 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA AA AA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
619828 TA TA TA TA TA T
1 TA TA TA TA TA T
619839 TCAAAAATCA
Statistics
Matches: 79, Mismatches: 4, Indels: 14
0.81 0.04 0.14
Matches are distributed among these distances:
1 5 0.06
2 73 0.92
3 1 0.01
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:620135 original size:58 final size:58
Alignment explanation
Indices: 619971--620137 Score: 217
Period size: 58 Copynumber: 2.9 Consensus size: 58
619961 AATCTTGTGT
** * * *
619971 TGATTCTAACTTCGTAAGGAAAATAAATAGTTGAATTTATTTCCTTGAAAATATTAAA
1 TGATTCTAACTTAATAAGGAAAATAAATAGTTGAATTTATTTTCTTGAGAACATTAAA
* * * ** * *
620029 TGATTCTAACTTTATAATGAAAACAAATAGTTGGTTTTATTTTCTTGAGAACCTTGAA
1 TGATTCTAACTTAATAAGGAAAATAAATAGTTGAATTTATTTTCTTGAGAACATTAAA
*
620087 TGATTCTAACTTAATAAGGAAAATAAATTGTTGAATTTATTTTCTTGAGAA
1 TGATTCTAACTTAATAAGGAAAATAAATAGTTGAATTTATTTTCTTGAGAA
620138 TCGTAGACGA
Statistics
Matches: 92, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 92 1.00
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.40
Consensus pattern (58 bp):
TGATTCTAACTTAATAAGGAAAATAAATAGTTGAATTTATTTTCTTGAGAACATTAAA
Found at i:620150 original size:58 final size:58
Alignment explanation
Indices: 619971--620187 Score: 206
Period size: 58 Copynumber: 3.7 Consensus size: 58
619961 AATCTTGTGT
** * * ** *
619971 TGATTCTAACTTCGTAAGGAAAATAAATAGTTGAATTTATTTCCTTGAAAATATTAAA
1 TGATTCTAACTTAATAAGGAAAATAAATAGTTGAATTTATTTTCTTGAGAATCCTAGA
* * * ** *
620029 TGATTCTAACTTTATAATGAAAACAAATAGTTGGTTTTATTTTCTTGAGAA-CCTTGAA
1 TGATTCTAACTTAATAAGGAAAATAAATAGTTGAATTTATTTTCTTGAGAATCCTAG-A
* *
620087 TGATTCTAACTTAATAAGGAAAATAAATTGTTGAATTTATTTTCTTGAGAATCGTAGA
1 TGATTCTAACTTAATAAGGAAAATAAATAGTTGAATTTATTTTCTTGAGAATCCTAGA
* * * * *
620145 CGATTCTGTCATTTAA-AAAG-AAATAAATTGTTGAATTTATTTT
1 TGATTC--TAACTTAATAAGGAAAATAAATAGTTGAATTTATTTT
620188 ATTATGAATC
Statistics
Matches: 131, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
57 1 0.01
58 118 0.90
59 6 0.05
60 6 0.05
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (58 bp):
TGATTCTAACTTAATAAGGAAAATAAATAGTTGAATTTATTTTCTTGAGAATCCTAGA
Found at i:620184 original size:116 final size:116
Alignment explanation
Indices: 619971--620187 Score: 265
Period size: 116 Copynumber: 1.9 Consensus size: 116
619961 AATCTTGTGT
** * *
619971 TGATTCTAACTTCGTAAGGAAAATAAATAGTTGAATTTATTTCCTTGAAAATATTAAATGATTCT
1 TGATTCTAACTTAATAAGGAAAATAAATAGTTGAATTTATTTCCTTGAAAATAGTAAACGATTCT
* * **
620036 AACTTTATAATGAAAACAAATAGTTGGTTTTATTTTCTTGAGAACCTTGAA
66 AACTTTAAAAAGAAAACAAATAGTTGAATTTATTTTCTTGAGAACCTTGAA
* * * * *
620087 TGATTCTAACTTAATAAGGAAAATAAATTGTTGAATTTATTTTCTTGAGAATCGTAGACGATTCT
1 TGATTCTAACTTAATAAGGAAAATAAATAGTTGAATTTATTTCCTTGAAAATAGTAAACGATTCT
** * *
620152 GTCATTTAAAAAG-AAATAAATTGTTGAATTTATTTT
66 AAC-TTTAAAAAGAAAACAAATAGTTGAATTTATTTT
620188 ATTATGAATC
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
116 76 0.92
117 7 0.08
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (116 bp):
TGATTCTAACTTAATAAGGAAAATAAATAGTTGAATTTATTTCCTTGAAAATAGTAAACGATTCT
AACTTTAAAAAGAAAACAAATAGTTGAATTTATTTTCTTGAGAACCTTGAA
Found at i:620218 original size:58 final size:58
Alignment explanation
Indices: 620107--620230 Score: 153
Period size: 58 Copynumber: 2.1 Consensus size: 58
620097 TTAATAAGGA
* * *
620107 AAATAAATTGTTGAATTTATTTTCTTGAGAATCGTAGACGATTCTGTCATTTAAAAAG
1 AAATAAATTGTTGAATTTATTTTATTGAGAATCGTAGACGATTATATCATTTAAAAAG
* * * *
620165 AAATAAATTGTTGAATTTATTTTATT-ATGAATCTTTA-ATGATTATATCTTTTAAAAAT
1 AAATAAATTGTTGAATTTATTTTATTGA-GAATC-GTAGACGATTATATCATTTAAAAAG
620223 AAATAAAT
1 AAATAAAT
620231 CATGAGATTT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
57 1 0.02
58 54 0.95
59 2 0.04
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (58 bp):
AAATAAATTGTTGAATTTATTTTATTGAGAATCGTAGACGATTATATCATTTAAAAAG
Found at i:620394 original size:39 final size:39
Alignment explanation
Indices: 620351--620588 Score: 139
Period size: 39 Copynumber: 6.5 Consensus size: 39
620341 GATTTTGATA
*
620351 TGTAAAAAGAAATAAATCGCATAATATATTTTCCTATTT
1 TGTAAAAAGAAATAAATCGCAGAATATATTTTCCTATTT
* * *
620390 TGTAAAAAGAAATAAATCGTAGAATTTATTTTCTTATTT
1 TGTAAAAAGAAATAAATCGCAGAATATATTTTCCTATTT
* * *
620429 TGT--AAA-AAAT-CAT--TA-AATTTAGTTTT--TATTT
1 TGTAAAAAGAAATAAATCGCAGAATATA-TTTTCCTATTT
* * ** *
620460 TGTAGAAGGAAATAAATCGTTTG-ATTTATTTT-CTATTT
1 TGTAAAAAGAAATAAATCG-CAGAATATATTTTCCTATTT
* * ** * *
620498 TGTAAAAGGAAATAACTCGTTGGATTTATTTTCCTA-TT
1 TGTAAAAAGAAATAAATCGCAGAATATATTTTCCTATTT
** * * *
620536 T-T---AAGAAATAAATCGTTGGATTTATTTTCTTATTT
1 TGTAAAAAGAAATAAATCGCAGAATATATTTTCCTATTT
620571 TGTAAAAAGAAATAAATC
1 TGTAAAAAGAAATAAATC
620589 ATTGATTTTT
Statistics
Matches: 169, Mismatches: 13, Indels: 34
0.78 0.06 0.16
Matches are distributed among these distances:
31 8 0.05
32 6 0.04
33 8 0.05
34 31 0.18
35 7 0.04
36 5 0.03
37 11 0.07
38 40 0.24
39 53 0.31
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (39 bp):
TGTAAAAAGAAATAAATCGCAGAATATATTTTCCTATTT
Found at i:620446 original size:137 final size:137
Alignment explanation
Indices: 620168--620435 Score: 298
Period size: 137 Copynumber: 2.0 Consensus size: 137
620158 TAAAAAGAAA
* * * * *
620168 TAAATTGTTGAATTTATTTTATTATGAATCTTTAATGATTATATCTTTTAAAAATAAATAAATCA
1 TAAATCGTTGAATTTATTTTATTAAGAATCTTTAATGATTATATCATGTAAAAAGAAATAAATCA
* * * * * * *
620233 TGAGATTTATTTTCCTGGTTTATAAAAATGAAATGAATCGTTGGATTTGTTTTTCTTGTTTTGTA
66 TGAGATATATTTTCCTAGTTTATAAAAATGAAATAAATCGTAGAATTTGATTTTCTTATTTTGTA
*
620298 AAAGGAT
131 AAAGCAT
*
620305 TAAATCGTTGAATTTATTTT-TCTAAGAAT-TTTATATGATTTTGAT-ATGTAAAAAGAAATAAA
1 TAAATCGTTGAATTTATTTTAT-TAAGAATCTTTA-ATGATTAT-ATCATGTAAAAAGAAATAAA
* *
620367 TCGCAT-A-ATATATTTTCCTATTTTGTAAAAA-GAAATAAATCGTAGAATTT-ATTTTCTTATT
63 T--CATGAGATATATTTTCCTAGTTTATAAAAATGAAATAAATCGTAGAATTTGATTTTCTTATT
620428 TTGTAAAA
126 TTGTAAAA
620436 AATCATTAAA
Statistics
Matches: 111, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
135 17 0.15
136 21 0.19
137 67 0.60
138 3 0.03
139 3 0.03
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.46
Consensus pattern (137 bp):
TAAATCGTTGAATTTATTTTATTAAGAATCTTTAATGATTATATCATGTAAAAAGAAATAAATCA
TGAGATATATTTTCCTAGTTTATAAAAATGAAATAAATCGTAGAATTTGATTTTCTTATTTTGTA
AAAGCAT
Found at i:620487 original size:38 final size:38
Alignment explanation
Indices: 620445--620601 Score: 184
Period size: 38 Copynumber: 4.2 Consensus size: 38
620435 AAATCATTAA
* *
620445 ATTTAGTTTT-TATTTTGTAGAAGGAAATAAATCGTTTG
1 ATTTA-TTTTCTATTTTGTAAAAGGAAATAAATCGTTGG
*
620483 ATTTATTTTCTATTTTGTAAAAGGAAATAACTCGTTGG
1 ATTTATTTTCTATTTTGTAAAAGGAAATAAATCGTTGG
620521 ATTTATTTTCCTA-TTT-T--AA-GAAATAAATCGTTGG
1 ATTTATTTT-CTATTTTGTAAAAGGAAATAAATCGTTGG
* *
620555 ATTTATTTTCTTATTTTGTAAAAAGAAATAAATCATT-G
1 ATTTATTTTC-TATTTTGTAAAAGGAAATAAATCGTTGG
*
620593 ATTTTTTTT
1 ATTTATTTT
620602 GGAATCTTAT
Statistics
Matches: 105, Mismatches: 6, Indels: 16
0.83 0.05 0.13
Matches are distributed among these distances:
33 1 0.01
34 25 0.24
35 5 0.05
36 1 0.01
37 5 0.05
38 53 0.50
39 15 0.14
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (38 bp):
ATTTATTTTCTATTTTGTAAAAGGAAATAAATCGTTGG
Found at i:620552 original size:34 final size:36
Alignment explanation
Indices: 620465--620571 Score: 139
Period size: 34 Copynumber: 3.0 Consensus size: 36
620455 TATTTTGTAG
*
620465 AAGGAAATAAATCGTTTGATTTATTTT-CTATTTTGTAA
1 AAGGAAATAAATCGTTGGATTTATTTTCCTA-TTT-T-A
*
620503 AAGGAAATAACTCGTTGGATTTATTTTCCTATTTT-
1 AAGGAAATAAATCGTTGGATTTATTTTCCTATTTTA
*
620538 AA-GAAATAAATCGTTGGATTTATTTTCTTATTTT
1 AAGGAAATAAATCGTTGGATTTATTTTCCTATTTT
620572 GTAAAAAGAA
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
34 30 0.47
35 2 0.03
37 1 0.02
38 28 0.44
39 3 0.05
ACGTcount: A:0.32, C:0.07, G:0.13, T:0.48
Consensus pattern (36 bp):
AAGGAAATAAATCGTTGGATTTATTTTCCTATTTTA
Found at i:620596 original size:72 final size:72
Alignment explanation
Indices: 620468--620601 Score: 207
Period size: 72 Copynumber: 1.9 Consensus size: 72
620458 TTTGTAGAAG
* * * *
620468 GAAATAAATCGTTTGATTTATTTTCTATTTTGTAAAAGGAAATAACTCGTTGGATTTATTTTCCT
1 GAAATAAATCGTTGGATTTATTTTCTATTTTGTAAAAAGAAATAAATCATTGGATTTATTTTCCT
620533 ATTTTAA
66 ATTTTAA
*
620540 GAAATAAATCGTTGGATTTATTTTCTTATTTTGTAAAAAGAAATAAATCATT-GATTTTTTTT
1 GAAATAAATCGTTGGATTTATTTTC-TATTTTGTAAAAAGAAATAAATCATTGGATTTATTTT
620602 GGAATCTTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 33 0.59
73 23 0.41
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.48
Consensus pattern (72 bp):
GAAATAAATCGTTGGATTTATTTTCTATTTTGTAAAAAGAAATAAATCATTGGATTTATTTTCCT
ATTTTAA
Found at i:620685 original size:44 final size:44
Alignment explanation
Indices: 620622--620708 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
620612 ATGATTCTTG
* * * * *
620622 TTTGTAAAAGGAAATAAATCGTTAGATTTATTTTTTTTTCTTAC
1 TTTGTAAAAGAAAAGAAATCGTTAGATTAAATTTATTTTCTTAC
*
620666 TTTGTAAAAGAAAAGAAATCGTTGGATTAAATTTATTTTCTTA
1 TTTGTAAAAGAAAAGAAATCGTTAGATTAAATTTATTTTCTTA
620709 GGAATCAAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.46
Consensus pattern (44 bp):
TTTGTAAAAGAAAAGAAATCGTTAGATTAAATTTATTTTCTTAC
Found at i:622901 original size:72 final size:75
Alignment explanation
Indices: 622714--622904 Score: 266
Period size: 76 Copynumber: 2.6 Consensus size: 75
622704 TTTTATCTTT
* * * *
622714 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTTTAGGATATTATTTTTATATTTTAT
1 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGGATATTATTTTTAAATATTA-
*
622779 CTTTGTTTTAG
65 CTTTGTTTAAG
622790 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTA-GATTATTA-TTTTAAATATTA
1 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGGA-TATTATTTTTAAATATTA
622853 -TTT-TTTAAG
65 CTTTGTTTAAG
*
622862 GTATTTTAGTTTAAATA-GTTTTAAGTGTTTTAATTAGGATTTA
1 GTATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAGGATTTA
622905 AGATGTTTAG
Statistics
Matches: 107, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
71 5 0.05
72 41 0.38
73 3 0.03
75 12 0.11
76 46 0.43
ACGTcount: A:0.29, C:0.01, G:0.14, T:0.57
Consensus pattern (75 bp):
GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGGATATTATTTTTAAATATTAC
TTTGTTTAAG
Found at i:623514 original size:16 final size:18
Alignment explanation
Indices: 623493--623535 Score: 63
Period size: 16 Copynumber: 2.5 Consensus size: 18
623483 CTTTAGATTA
623493 TTTATTTAATTATT-T-T
1 TTTATTTAATTATTATCT
*
623509 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
623527 TTTATTTAA
1 TTTATTTAA
623536 AAAAACAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 13 0.54
17 1 0.04
18 10 0.42
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:623595 original size:15 final size:15
Alignment explanation
Indices: 623575--623617 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
623565 ATTTTACTAC
623575 TATTATTTATTATTT
1 TATTATTTATTATTT
*
623590 TATTATTT-TCCATTT
1 TATTATTTAT-TATTT
*
623605 TATTTTTTATTAT
1 TATTATTTATTAT
623618 CTATTTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 1 0.04
15 21 0.91
16 1 0.04
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTATTTATTATTT
Found at i:623623 original size:19 final size:20
Alignment explanation
Indices: 623584--623633 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
623574 CTATTATTTA
*
623584 TTATTTTATTATTTTCCATT
1 TTATTTTATTATTATCCATT
*
623604 TTATTTT-TTATTATCTATT
1 TTATTTTATTATTATCCATT
623623 TTATTTTATTA
1 TTATTTTATTA
623634 AATCTTTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (20 bp):
TTATTTTATTATTATCCATT
Found at i:623638 original size:19 final size:19
Alignment explanation
Indices: 623601--623638 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
623591 ATTATTTTCC
*
623601 ATTTTATTTTTTATTATCT
1 ATTTTATTTTTTATAATCT
623620 ATTTTATTTTATTA-AATCT
1 ATTTTATTTT-TTATAATCT
623639 TTTCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTATTTTTTATAATCT
Found at i:628310 original size:24 final size:24
Alignment explanation
Indices: 628282--628449 Score: 82
Period size: 24 Copynumber: 7.0 Consensus size: 24
628272 TTTTATCTTT
628282 GTATTTTAGTTTAAATAGGTTTTA
1 GTATTTTAGTTTAAATAGGTTTTA
* * *
628306 GTATTTTA-ATTAAGTTTTAGAGTATTA
1 GTATTTTAGTTTAA---ATAG-GTTTTA
* * * **
628333 -TTTTTATATTTTATATTTGTTTTA
1 GTATTT-TAGTTTAAATAGGTTTTA
628357 GGTATTTTAGTTTAAATAGGTTTTA
1 -GTATTTTAGTTTAAATAGGTTTTA
*
628382 GTATTTTAG--T---TAGGATTTA
1 GTATTTTAGTTTAAATAGGTTTTA
* * * **
628401 GAATATTATTTTAAATATTTTTTTA
1 GTATTTTAGTTTAAATA-GGTTTTA
628426 GGTATTTTAGTTTAAATA-GTTTTA
1 -GTATTTTAGTTTAAATAGGTTTTA
628450 AGTGTTTTCA
Statistics
Matches: 103, Mismatches: 26, Indels: 30
0.65 0.16 0.19
Matches are distributed among these distances:
19 14 0.14
21 1 0.01
22 1 0.01
23 4 0.04
24 29 0.28
25 19 0.18
26 25 0.24
27 7 0.07
28 3 0.03
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (24 bp):
GTATTTTAGTTTAAATAGGTTTTA
Found at i:628344 original size:32 final size:32
Alignment explanation
Indices: 628301--628362 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
628291 TTTAAATAGG
628301 TTTTAGTATTTTA-ATTAAGTTTTAGAGTATTAT
1 TTTTAGTATTTTATATT-AGTTTTAG-GTATTAT
*
628334 TTTTA-TATTTTATATTTGTTTTAGGTATT
1 TTTTAGTATTTTATATTAGTTTTAGGTATT
628363 TTAGTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 5 0.19
32 14 0.52
33 8 0.30
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (32 bp):
TTTTAGTATTTTATATTAGTTTTAGGTATTAT
Found at i:629081 original size:17 final size:18
Alignment explanation
Indices: 629059--629100 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
629049 CTTTAGATTA
629059 TTTATTTAATTATT-TCT
1 TTTATTTAATTATTATCT
*
629076 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
629094 TTTATTT
1 TTTATTT
629101 TAAAAATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:629201 original size:19 final size:18
Alignment explanation
Indices: 629166--629201 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
629156 ATTATTTCCC
*
629166 TTTTATTTATTATATCTA
1 TTTTATTTATTAAATCTA
629184 TTTTATTTTATTAAATCT
1 TTTTA-TTTATTAAATCT
629202 TTTCAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTTATTAAATCTA
Found at i:633843 original size:335 final size:340
Alignment explanation
Indices: 633191--633874 Score: 864
Period size: 335 Copynumber: 2.0 Consensus size: 340
633181 CGGTTTTTGC
* *
633191 CCGGGTACGAATTTTTACTTGGCGGGAAAAGTAAAATGAATAAATAAATGATTTTGATTTTTTAA
1 CCGGGTACGAATTTTTACTTGGCGGAAAAAGTAAAATGAATAAATAAATG----TGATTTATT-A
* *
633256 AAAATATTTTAGGAGTCGCCATTGACCTTTTTGAGTTAGGTAGGTCAAATACCTAAAACAATCTT
61 AAAATATTTTAGGAGTCACCAATGACCTTTTTGAGTTAGGTAGGTCAAATACCTAAAACAATCTT
* * * *
633321 TTAAAATAGTTTTTTTTTTAAAAAAAACATAATTTAAAAGATAAACTGACCTACGTATAACAAAA
126 TTAAAATAG----TCTTTTAAAAAAAACATAATTAAAAAAATAAACTGACATACGTATAACAAAA
* * * * * * * *
633386 AAAATTAGTTAATAAGAGATTCGTGGTTGATTACGTTTATGGAATGATTAACACCCCCTATAATA
187 AAAATTAATAAAAAAGAGATTCGTGGTCGATTACGTTAAGGGAATAATTAACACCCCCTATAACA
* *
633451 CCTAAAATTGGTACTCATTAATTATAAATTGTCTCTATTATTGGAAATTTAAGAATTC-AAAGAT
252 CCCAAAATTAGTACTCATTAATTATAAATTGTCTCTATTATTGGAAATTTAAGAATTCGAAA-AT
*
633515 ATATTTAATTCATAATCCTGTGATT
316 AGATTTAATTCATAATCCTGTGATT
** *
633540 CCGGGTACGAATTTTTACTTGGC-GAAAAAGTAATGTGAATAAATAAATG-GATTTATT-GAAAT
1 CCGGGTACGAATTTTTACTTGGCGGAAAAAGTAAAATGAATAAATAAATGTGATTTATTAAAAAT
* * *
633602 GTTTTGGGAGTCACCAATGACCTTTTTGGGTTAGGTAGGTCAAATACCTAAAAACAATCTTTTAA
66 ATTTTAGGAGTCACCAATGACCTTTTTGAGTTAGGTAGGTCAAATACCT-AAAACAATCTTTTAA
* * * ** *
633667 ACTAG-CTTTT-AAGAAAACATAATTAAAAAAATAAACTGATATGTGTATAACAAAAAAATTTAA
130 AATAGTCTTTTAAAAAAAACATAATTAAAAAAATAAACTGACATACGTATAACAAAAAAAATTAA
* * *
633730 TAAAAAAG-GAATTCGTGGTCGGTTACGTTAAGGGAATAATTAGCA-CCCCTCTAACACCCAAAA
195 TAAAAAAGAG-ATTCGTGGTCGATTACGTTAAGGGAATAATTAACACCCCCTATAACACCCAAAA
* *
633793 TTAGTAC-CTGTTAATTATAAATTGTCTCTATTATTGGAAATTTAAGAATTCGGAAATAGATTTA
259 TTAGTACTC-ATTAATTATAAATTGTCTCTATTATTGGAAATTTAAGAATTCGAAAATAGATTTA
633857 ATTCATAATCCTGTGATT
323 ATTCATAATCCTGTGATT
633875 TCAAATTTAT
Statistics
Matches: 295, Mismatches: 36, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
334 1 0.00
335 89 0.30
336 81 0.27
337 4 0.01
341 48 0.16
342 19 0.06
343 7 0.02
348 23 0.08
349 23 0.08
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (340 bp):
CCGGGTACGAATTTTTACTTGGCGGAAAAAGTAAAATGAATAAATAAATGTGATTTATTAAAAAT
ATTTTAGGAGTCACCAATGACCTTTTTGAGTTAGGTAGGTCAAATACCTAAAACAATCTTTTAAA
ATAGTCTTTTAAAAAAAACATAATTAAAAAAATAAACTGACATACGTATAACAAAAAAAATTAAT
AAAAAAGAGATTCGTGGTCGATTACGTTAAGGGAATAATTAACACCCCCTATAACACCCAAAATT
AGTACTCATTAATTATAAATTGTCTCTATTATTGGAAATTTAAGAATTCGAAAATAGATTTAATT
CATAATCCTGTGATT
Found at i:635526 original size:3 final size:3
Alignment explanation
Indices: 635511--635589 Score: 79
Period size: 3 Copynumber: 26.7 Consensus size: 3
635501 TATTATTAAA
* * * * *
635511 AAT AAA AAT -AT AAT AAT AAT AAT AAT ACT TAT AAT AAT TAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
635558 TAT AAT AAT AAT AAA AAT AAT AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
635590 AAATTAAAAC
Statistics
Matches: 59, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:636161 original size:139 final size:138
Alignment explanation
Indices: 635843--636202 Score: 517
Period size: 139 Copynumber: 2.6 Consensus size: 138
635833 CTAGCAAAAA
635843 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
* * * * * *
635908 C-TCCTTCTGGAAATGATGATCCTCAAAAAGAGGTGTCGTTGATTCAACTTCATATGTGATGAAT
66 CTTTC-TCTGGAAATGTTGATCCTCAAAAAGAGGTGTCGTTCACTCAACTCCATAGGTGATGAAT
* *
635972 TAAGGCAAT
130 CAAGGCAAG
* *
635981 GTTGAACAAGTTCTTCTCATTATTAACTTCTTCTTCCTCTTCAGACGAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
* * * *
636046 CTTTCTCTGAAAATGTTGATCCTC-AAGAGAGGTTCTTCTTTCACTCAACTCCATAGGTGATGAA
66 CTTTCTCTGGAAATGTTGATCCTCAAAAAGAGG-T-GTCGTTCACTCAACTCCATAGGTGATGAA
636110 TCAAGGCAAG
129 TCAAGGCAAG
* * *
636120 GTTGAACAAGTTATTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
*
636185 CTTTATCTGGAAATGTTG
66 CTTTCTCTGGAAATGTTG
636203 GTGCTGATCT
Statistics
Matches: 198, Mismatches: 21, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
137 7 0.04
138 82 0.41
139 109 0.55
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (138 bp):
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
CTTTCTCTGGAAATGTTGATCCTCAAAAAGAGGTGTCGTTCACTCAACTCCATAGGTGATGAATC
AAGGCAAG
Found at i:636394 original size:73 final size:73
Alignment explanation
Indices: 636310--636460 Score: 232
Period size: 73 Copynumber: 2.1 Consensus size: 73
636300 TGGAGATTTA
* *
636310 TGTTTCTAGTGAAACTGTCTCAAGCGAGACG-AATCTTGTTTTAAGAAAAACAATCTCAAGTGAG
1 TGTTTCGAGTGAAACTGACTCAAGCGAGACGCAAT-TTGTTTTAAGAAAAACAATCTCAAGTGAG
*
636374 ATAATTTGT
65 ATAAATTGT
* * *
636383 TGTTTCGAGTGAAACTGACTCAAGCGAGACGCAGTTTGTTTTAAGAAAACCAATCTTAAGTGAGA
1 TGTTTCGAGTGAAACTGACTCAAGCGAGACGCAATTTGTTTTAAGAAAAACAATCTCAAGTGAGA
636448 TAAATTGT
66 TAAATTGT
636456 TGTTT
1 TGTTT
636461 GAAAACATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
73 69 0.97
74 2 0.03
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (73 bp):
TGTTTCGAGTGAAACTGACTCAAGCGAGACGCAATTTGTTTTAAGAAAAACAATCTCAAGTGAGA
TAAATTGT
Found at i:637239 original size:22 final size:22
Alignment explanation
Indices: 637184--637240 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
637174 AATAAAGCTT
*
637184 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
* *
637206 TCATTTTTGAAGAGAGAGTCTA
1 TCATCTTTGAAGAGAGAATCTA
637228 TCATCTTTGAAGA
1 TCATCTTTGAAGA
637241 ATGTAGATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATCTA
Found at i:637738 original size:54 final size:53
Alignment explanation
Indices: 637610--637821 Score: 237
Period size: 54 Copynumber: 3.9 Consensus size: 53
637600 CACTGGTTCA
* ** * * **
637610 TAAAATATTTGACAACACATTCATCC-AACTGTAGCTTCTACATAGATGTTTCG
1 TAAAACATTTGACAACACATTCATCCTTTCTGTGGCTTCTGCCCAGAT-TTTCG
*
637663 TAAAATATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCCCAGATTTTCG
1 TAAAACATTTGACAACACATTCATCCTTTC-TGTGGCTTCTGCCCAGATTTTCG
* *
637717 TAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGATGTTAG
1 TAAAACATTTGACAACACATTCATCCTTT-CTGTGGCTTCTGCCCAGATTTTCG
* * * * * *
637771 TAAAACATTTGACAACTCATTAATCTTTTCTTGTGGATTCTGTCTAGATTT
1 TAAAACATTTGACAACACATTCATCCTTTC-TGTGGCTTCTGCCCAGATTT
637822 CTCAATCATT
Statistics
Matches: 139, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
53 27 0.19
54 97 0.70
55 15 0.11
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (53 bp):
TAAAACATTTGACAACACATTCATCCTTTCTGTGGCTTCTGCCCAGATTTTCG
Found at i:639576 original size:143 final size:143
Alignment explanation
Indices: 639381--639659 Score: 441
Period size: 143 Copynumber: 2.0 Consensus size: 143
639371 TGATCATTTG
* * *
639381 GAGAAATTAATGAGTAGATTTGGTATATTTGACCTTGTTGTCAGTGGAATCCCGTATAAATGATG
1 GAGAAATTAATGAGTAGATTTGGTAGATTCGACCTTGTTGTCAGTGGAATCCCGTATAAATGATA
* * **
639446 ATCGGTTGGAGCAATTGATGAGTAGATTTAGCGGATTCGACCTTGTTGTCGGTGTTATCCCGTAT
66 ATCGGTTGGAGCAATTGATGACTAGATTTAGCAGATTCGACCTTGTTGTCGGTGGCATCCCGTAT
639511 GAATGATTGGTTA
131 GAATGATTGGTTA
* * * *
639524 GAGAAATTGATGAGTAGATTTGGTGGATTCGACCTTGTTGTCGGTGGCATCCCGTATAAATGATA
1 GAGAAATTAATGAGTAGATTTGGTAGATTCGACCTTGTTGTCAGTGGAATCCCGTATAAATGATA
* *
639589 ATCGGTTGGAGCAATTGATGACTAGATTTGGCAGATTCGACCTTGTTGTCGGTGGCATCCCGTGT
66 ATCGGTTGGAGCAATTGATGACTAGATTTAGCAGATTCGACCTTGTTGTCGGTGGCATCCCGTAT
639654 GAATGA
131 GAATGA
639660 CCTTACTGGA
Statistics
Matches: 123, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
143 123 1.00
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.34
Consensus pattern (143 bp):
GAGAAATTAATGAGTAGATTTGGTAGATTCGACCTTGTTGTCAGTGGAATCCCGTATAAATGATA
ATCGGTTGGAGCAATTGATGACTAGATTTAGCAGATTCGACCTTGTTGTCGGTGGCATCCCGTAT
GAATGATTGGTTA
Found at i:639659 original size:73 final size:73
Alignment explanation
Indices: 639364--639659 Score: 373
Period size: 73 Copynumber: 4.1 Consensus size: 73
639354 GTGCAAGAAC
** * * * * * *
639364 TGAATGATGATCATTTGGAGAAATTAATGAGTAGATTTGGTATATTTGACCTTGTTGTCAGTGGA
1 TGAATGATGATCGGTTGGAGAAATTGATGAGTAGATTTGGCAGATTCGACCTTGTTGTCGGTGGC
639429 ATCCCGTA
66 ATCCCGTA
* * * * **
639437 TAAATGATGATCGGTTGGAGCAATTGATGAGTAGATTTAGCGGATTCGACCTTGTTGTCGGTGTT
1 TGAATGATGATCGGTTGGAGAAATTGATGAGTAGATTTGGCAGATTCGACCTTGTTGTCGGTGGC
639502 ATCCCGTA
66 ATCCCGTA
* **
639510 TGAATGAT--T-GGTTAGAGAAATTGATGAGTAGATTTGGTGGATTCGACCTTGTTGTCGGTGGC
1 TGAATGATGATCGGTTGGAGAAATTGATGAGTAGATTTGGCAGATTCGACCTTGTTGTCGGTGGC
639572 ATCCCGTA
66 ATCCCGTA
* * * *
639580 TAAATGATAATCGGTTGGAGCAATTGATGACTAGATTTGGCAGATTCGACCTTGTTGTCGGTGGC
1 TGAATGATGATCGGTTGGAGAAATTGATGAGTAGATTTGGCAGATTCGACCTTGTTGTCGGTGGC
*
639645 ATCCCGTG
66 ATCCCGTA
639653 TGAATGA
1 TGAATGA
639660 CCTTACTGGA
Statistics
Matches: 192, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
70 62 0.32
71 1 0.01
72 1 0.01
73 128 0.67
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.34
Consensus pattern (73 bp):
TGAATGATGATCGGTTGGAGAAATTGATGAGTAGATTTGGCAGATTCGACCTTGTTGTCGGTGGC
ATCCCGTA
Found at i:641184 original size:72 final size:72
Alignment explanation
Indices: 641054--641188 Score: 191
Period size: 72 Copynumber: 1.9 Consensus size: 72
641044 TATAATAGGT
* *
641054 TAGCTGAATATTATCCATAAAGCCGGGGTGATTAACCAATTGCTCCAGAGGGACAACTCAAGCAT
1 TAGCTGAATATTATCCATAAAACCGGGGTGATTAACCAATTACTCCAGAGGGACAACTCAAGCAT
641119 AACATAC
66 AACATAC
* ** * *
641126 TAGCTGAATATTATCCATAAAACTGGGGCT-ATTAACCAATTACTTTAGGGGGATAACTCAAGC
1 TAGCTGAATATTATCCATAAAACCGGGG-TGATTAACCAATTACTCCAGAGGGACAACTCAAGC
641189 TTTATTGTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
72 54 0.98
73 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (72 bp):
TAGCTGAATATTATCCATAAAACCGGGGTGATTAACCAATTACTCCAGAGGGACAACTCAAGCAT
AACATAC
Found at i:643760 original size:13 final size:14
Alignment explanation
Indices: 643742--643784 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
643732 ATAAAAGTAC
643742 AAATGCAAAATG-A
1 AAATGCAAAATGCA
643755 AAATGCAAAAATGCA
1 AAATGC-AAAATGCA
*
643770 AGATGC-AAATGCA
1 AAATGCAAAATGCA
643783 AA
1 AA
643785 TGAGAAAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 14 0.54
14 6 0.23
15 6 0.23
ACGTcount: A:0.58, C:0.12, G:0.16, T:0.14
Consensus pattern (14 bp):
AAATGCAAAATGCA
Found at i:643767 original size:8 final size:7
Alignment explanation
Indices: 643742--643784 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
643732 ATAAAAGTAC
643742 AAATGCA
1 AAATGCA
643749 AAATG-A
1 AAATGCA
643755 AAATGCAA
1 AAATGC-A
643763 AAATGCA
1 AAATGCA
*
643770 AGATGC-
1 AAATGCA
643776 AAATGCA
1 AAATGCA
643783 AA
1 AA
643785 TGAGAAAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
6 11 0.35
7 13 0.42
8 7 0.23
ACGTcount: A:0.58, C:0.12, G:0.16, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:643768 original size:21 final size:21
Alignment explanation
Indices: 643742--643784 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
643732 ATAAAAGTAC
643742 AAATGCAAAATGAAAATGCAA
1 AAATGCAAAATGAAAATGCAA
* *
643763 AAATGCAAGATGCAAATGCAA
1 AAATGCAAAATGAAAATGCAA
643784 A
1 A
643785 TGAGAAAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.58, C:0.12, G:0.16, T:0.14
Consensus pattern (21 bp):
AAATGCAAAATGAAAATGCAA
Found at i:648104 original size:3 final size:3
Alignment explanation
Indices: 648098--648180 Score: 71
Period size: 3 Copynumber: 28.3 Consensus size: 3
648088 TTTATTATTG
* * * * *
648098 ATA ATA AAA AT- ATA ATA ATA ATA ATA ATA CTT ATA ATA ATT ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
648145 ATT ATA ATA ATT ATT ATT ATA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
648181 AAAAAACGGG
Statistics
Matches: 64, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
2 4 0.06
3 60 0.94
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:662081 original size:21 final size:21
Alignment explanation
Indices: 662051--662099 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
662041 TTTGCAGTGC
*
662051 ATTG-TTTTTTCTATTATTCT
1 ATTGATTTTTTATATTATTCT
*
662071 ATTGATTTTTTATTTTATTCT
1 ATTGATTTTTTATATTATTCT
662092 ATTGATTT
1 ATTGATTT
662100 GATCTATGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.69
Consensus pattern (21 bp):
ATTGATTTTTTATATTATTCT
Found at i:669065 original size:15 final size:15
Alignment explanation
Indices: 669045--669075 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
669035 AGGAGGGCCT
*
669045 AGCTGAATTGTTTTC
1 AGCTGAATTATTTTC
669060 AGCTGAATTATTTTC
1 AGCTGAATTATTTTC
669075 A
1 A
669076 AAAATAGGGG
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:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (15 bp):
AGCTGAATTATTTTC
Found at i:676402 original size:42 final size:42
Alignment explanation
Indices: 676355--676454 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
676345 GTATTATTAT
*
676355 TGTGCTAGCTGGTAATTCAAAAATTAATAATGTTGTAACAAC
1 TGTGCTAGCTGGTAATCCAAAAATTAATAATGTTGTAACAAC
**
676397 TGTGCTAGCTGGTAATCCGCAAATTAATAATGTTGTAACAAC
1 TGTGCTAGCTGGTAATCCAAAAATTAATAATGTTGTAACAAC
*
676439 TGTGCTAGCTGTTAAT
1 TGTGCTAGCTGGTAAT
676455 ATTGGAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (42 bp):
TGTGCTAGCTGGTAATCCAAAAATTAATAATGTTGTAACAAC
Found at i:679470 original size:4 final size:4
Alignment explanation
Indices: 679461--679493 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
679451 CTTTAATCGG
679461 TAAT TAAT TAAT TAAT TAAT TAAT TAA- TAAT TA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TA
679494 TGATAAAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:680761 original size:60 final size:60
Alignment explanation
Indices: 680681--680829 Score: 181
Period size: 60 Copynumber: 2.5 Consensus size: 60
680671 TACCACCTCT
* * * * *
680681 AAGCATGGCCCTTTCAATTCTCGATGAATGAATCACCTAAGTTTAAAGTAGAAAGAAAGA
1 AAGCATAGCACTTTCGATTCTCGATGAATGAATCACCTAAATCTAAAGTAGAAAGAAAGA
*** * * * *
680741 AAGCATATTTCTTTCGATTCTCGATGTATGAATTACCTAAATCTAAAGTAGAACGAAAGG
1 AAGCATAGCACTTTCGATTCTCGATGAATGAATCACCTAAATCTAAAGTAGAAAGAAAGA
*
680801 AAGCATAGCACTTTCGATTATCGATGAAT
1 AAGCATAGCACTTTCGATTCTCGATGAAT
680830 CACCTAAGCG
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 73 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (60 bp):
AAGCATAGCACTTTCGATTCTCGATGAATGAATCACCTAAATCTAAAGTAGAAAGAAAGA
Found at i:680836 original size:56 final size:58
Alignment explanation
Indices: 680708--680862 Score: 154
Period size: 60 Copynumber: 2.7 Consensus size: 58
680698 TTCTCGATGA
* * * * *** *
680708 ATGAATCACCTAAGTTTAAAGTAGAAAGAAAGAAAGCATATTTCTTTCGATTCTCGATGT
1 ATGAATCACCTAAATCTAAAGTAGAACGAAAGGAAGCATAGCACTTTCGATTATC-A-GT
*
680768 ATGAATTACCTAAATCTAAAGTAGAACGAAAGGAAGCATAGCACTTTCGATTATC-G-
1 ATGAATCACCTAAATCTAAAGTAGAACGAAAGGAAGCATAGCACTTTCGATTATCAGT
* * *
680824 ATGAATCACCT-AAGCGTAAAGCAGAACGCAAGGAAGCAT
1 ATGAATCACCTAAATC-TAAAGTAGAACGAAAGGAAGCAT
680863 GGCATTTTTA
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
55 3 0.04
56 31 0.38
57 1 0.01
60 46 0.57
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.25
Consensus pattern (58 bp):
ATGAATCACCTAAATCTAAAGTAGAACGAAAGGAAGCATAGCACTTTCGATTATCAGT
Found at i:680885 original size:56 final size:56
Alignment explanation
Indices: 680784--680893 Score: 139
Period size: 56 Copynumber: 2.0 Consensus size: 56
680774 TACCTAAATC
* * *
680784 TAAAGTAGAACGAAAGGAAGCATAGCACTTTCGATTATCGATGAATCACCTAAGCG
1 TAAAGCAGAACGAAAGGAAGCATAGCACTTTCAATTATCCATGAATCACCTAAGCG
* * * * * *
680840 TAAAGCAGAACGCAAGGAAGCATGGCATTTTTAATTCTCCTTGAATCACCTAAG
1 TAAAGCAGAACGAAAGGAAGCATAGCACTTTCAATTATCCATGAATCACCTAAG
680894 TAAAGGGAAC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (56 bp):
TAAAGCAGAACGAAAGGAAGCATAGCACTTTCAATTATCCATGAATCACCTAAGCG
Found at i:685784 original size:8 final size:8
Alignment explanation
Indices: 685771--685797 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
685761 AAGAAAAACA
685771 TTTAAATT
1 TTTAAATT
685779 TTTAAATT
1 TTTAAATT
685787 TTTAAATT
1 TTTAAATT
685795 TTT
1 TTT
685798 CTCAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTAAATT
Found at i:692451 original size:21 final size:20
Alignment explanation
Indices: 692425--692495 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 20
692415 TTGCATTTCG
692425 CGTTGCGATAGTGTACAGTGT
1 CGTTGCGATAGTGTACA-TGT
* * * *
692446 CGTTGC-A-ATTTTCCATTT
1 CGTTGCGATAGTGTACATGT
692464 CGCGTTGCGATAGTGTACATTGT
1 --CGTTGCGATAGTGTACA-TGT
692487 CGTTGCGAT
1 CGTTGCGAT
692496 TTTCCATCTC
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
18 2 0.05
19 5 0.14
20 7 0.19
21 16 0.43
22 5 0.14
23 2 0.05
ACGTcount: A:0.17, C:0.18, G:0.27, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTGTACATGT
Found at i:692465 original size:41 final size:41
Alignment explanation
Indices: 692418--692541 Score: 203
Period size: 41 Copynumber: 3.0 Consensus size: 41
692408 ATTCGCGTTG
*
692418 CATTTCGCGTTGCGATAGTGTACAGTGTCGTTGCAATTTTC
1 CATTTCGCGTTGCGATAGTGTACAGTGTCGTTGCGATTTTC
*
692459 CATTTCGCGTTGCGATAGTGTACATTGTCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTGTACAGTGTCGTTGCGATTTTC
* * *
692500 CATCTCGCGTTGCGATAGTCTACAGTGTCGTTACGATTTTC
1 CATTTCGCGTTGCGATAGTGTACAGTGTCGTTGCGATTTTC
692541 C
1 C
692542 GCGTTGCGAT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 77 1.00
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.39
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTGTACAGTGTCGTTGCGATTTTC
Found at i:692512 original size:20 final size:19
Alignment explanation
Indices: 692446--692515 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 19
692436 TGTACAGTGT
*
692446 CGTTGCAATTTTCCATTTCG
1 CGTTGCGATTTTCCA-TTCG
* *
692466 CGTTGCGATAGTGTACATT-G
1 CGTTGCGAT--TTTCCATTCG
692486 TCGTTGCGATTTTCCATCTCG
1 -CGTTGCGATTTTCCAT-TCG
692507 CGTTGCGAT
1 CGTTGCGAT
692516 AGTCTACAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
19 5 0.12
20 19 0.47
21 12 0.30
22 4 0.10
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.40
Consensus pattern (19 bp):
CGTTGCGATTTTCCATTCG
Done.