Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009330.1 Hibiscus syriacus cultivar Beakdansim tig00113096_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: 1820295
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:902179 original size:31 final size:29
Alignment explanation
Indices: 902144--902237 Score: 118
Period size: 29 Copynumber: 3.2 Consensus size: 29
902134 ATAATATTTT
*
902144 AATATATTTTTAAAAGTTTAGATAATAATAA
1 AATATATTTTT--AAGTTTAGATAAGAATAA
*
902175 AATATATTTTTAA-TTTAAAATAAGAATAA
1 AATATATTTTTAAGTTT-AGATAAGAATAA
**
902204 AATATATTTTTAAGTAAAGATAAGAATAA
1 AATATATTTTTAAGTTTAGATAAGAATAA
902233 AATAT
1 AATAT
902238 TATATATATT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
28 3 0.05
29 41 0.73
30 1 0.02
31 11 0.20
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.39
Consensus pattern (29 bp):
AATATATTTTTAAGTTTAGATAAGAATAA
Found at i:902264 original size:37 final size:36
Alignment explanation
Indices: 902205--902319 Score: 114
Period size: 37 Copynumber: 3.2 Consensus size: 36
902195 TAAGAATAAA
*
902205 ATATATTTTTAAGTA-AAGATAAGAATAAAATATTAT
1 ATATATTTTTAA-TATAAAATAAGAATAAAATATTAT
* *
902241 ATATATTTTTTAATTTAAAATAAGAGTAAAATA-TAT
1 ATATA-TTTTTAATATAAAATAAGAATAAAATATTAT
* *
902277 ATA-A-TTTT-ATATAAAATTAATAATAAAATATTTAA
1 ATATATTTTTAATATAAAA-TAAGAATAAAATA-TTAT
902312 ATATATTT
1 ATATATTT
902320 CAAGTTAAGA
Statistics
Matches: 65, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
32 7 0.11
33 15 0.23
35 6 0.09
36 13 0.20
37 24 0.37
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (36 bp):
ATATATTTTTAATATAAAATAAGAATAAAATATTAT
Found at i:902374 original size:2 final size:2
Alignment explanation
Indices: 902367--902403 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
902357 GATAAAGATA
902367 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
902404 CATTAAAATA
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:902422 original size:24 final size:25
Alignment explanation
Indices: 902393--902475 Score: 64
Period size: 23 Copynumber: 3.4 Consensus size: 25
902383 ATATATATAT
*
902393 ATATATATATACATTAAAATAAAAAA
1 ATATATA-ATAAATTAAAATAAAAAA
* *
902419 ATATTTAATAAATTAAGAT--AAAA
1 ATATATAATAAATTAAAATAAAAAA
* * * *
902442 ATATTTAATCAGTTAAAACAAAAATA
1 ATATATAATAAATTAAAATAAAAA-A
902468 A-ATATAAT
1 ATATATAAT
902476 TTAAAAATAG
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
23 19 0.41
25 19 0.41
26 8 0.17
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (25 bp):
ATATATAATAAATTAAAATAAAAAA
Found at i:902433 original size:25 final size:25
Alignment explanation
Indices: 902405--902465 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 25
902395 ATATATATAC
902405 ATTAAAATAAAAAAATATTTAATAA
1 ATTAAAATAAAAAAATATTTAATAA
* *
902430 ATTAAGAT--AAAAATATTTAATCA
1 ATTAAAATAAAAAAATATTTAATAA
* *
902453 GTTAAAACAAAAA
1 ATTAAAATAAAAA
902466 TAAATATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
23 19 0.66
25 10 0.34
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (25 bp):
ATTAAAATAAAAAAATATTTAATAA
Found at i:904703 original size:11 final size:12
Alignment explanation
Indices: 904678--904710 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
904668 ACTGTGTAAA
904678 AAAACAAAAATTG
1 AAAA-AAAAATTG
904691 AAAAAAAAA-TG
1 AAAAAAAAATTG
904702 AAAAAAAAA
1 AAAAAAAAA
904711 ACATCTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 5 0.25
13 4 0.20
ACGTcount: A:0.82, C:0.03, G:0.06, T:0.09
Consensus pattern (12 bp):
AAAAAAAAATTG
Found at i:907669 original size:40 final size:40
Alignment explanation
Indices: 907625--907705 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
907615 TGATGTTTAG
*
907625 ATATTAAATTTTTCTATAATAGGTTACATAGATTTATAAA
1 ATATTAAATTTTGCTATAATAGGTTACATAGATTTATAAA
*
907665 ATATTAAATTTTGCTATAATAGGTTACATGGATTTATAAA
1 ATATTAAATTTTGCTATAATAGGTTACATAGATTTATAAA
907705 A
1 A
907706 AAATATATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (40 bp):
ATATTAAATTTTGCTATAATAGGTTACATAGATTTATAAA
Found at i:908904 original size:21 final size:22
Alignment explanation
Indices: 908875--908917 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
908865 TTGGATTACG
*
908875 ATTTTTTTAAATT-AATTTTTT
1 ATTTATTTAAATTCAATTTTTT
*
908896 ATTTATTTATATTCAATTTTTT
1 ATTTATTTAAATTCAATTTTTT
908918 TAATTGTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (22 bp):
ATTTATTTAAATTCAATTTTTT
Found at i:912694 original size:60 final size:60
Alignment explanation
Indices: 912624--912832 Score: 260
Period size: 60 Copynumber: 3.5 Consensus size: 60
912614 GATAAATATT
* ** * *
912624 GAGGATTTAAAGCCAACTAAGGATTTAGAGTGGAAGCCAAAGAAGGGTATGTACTATGAG
1 GAGGAATTAAAGCCAAAGAAGGATGTAGAGTGGAAGCCAAAGAAGGATATGTACTATGAG
* * *
912684 GAGGAATTAAAGCCAAAGAAGGATGTAGAGTGGAAGCCAAGGAAAGATATGTACTATGAA
1 GAGGAATTAAAGCCAAAGAAGGATGTAGAGTGGAAGCCAAAGAAGGATATGTACTATGAG
* * * *
912744 GAGAAATTAAAGCCAAAGAAGGATGCAGAGCT-GAAG-CTAAGTAAGGATATGTTCTATGAG
1 GAGGAATTAAAGCCAAAGAAGGATGTAGAG-TGGAAGCCAAAG-AAGGATATGTACTATGAG
* *
912804 GAGGAATTAAAGCCGAAGAAGGATTTAGA
1 GAGGAATTAAAGCCAAAGAAGGATGTAGA
912833 ACCGAAGCCA
Statistics
Matches: 128, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
59 3 0.02
60 124 0.97
61 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.30, T:0.19
Consensus pattern (60 bp):
GAGGAATTAAAGCCAAAGAAGGATGTAGAGTGGAAGCCAAAGAAGGATATGTACTATGAG
Found at i:914240 original size:10 final size:10
Alignment explanation
Indices: 914225--914254 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
914215 CATAAGCCTC
914225 AAAATTATTT
1 AAAATTATTT
*
914235 AAAATTATGT
1 AAAATTATTT
914245 AAAATTATTT
1 AAAATTATTT
914255 TTAGTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (10 bp):
AAAATTATTT
Found at i:919808 original size:2 final size:2
Alignment explanation
Indices: 919803--919851 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
919793 CAAAAAGTTG
* * * *
919803 AT AT AT AT AT AT AC AC AC AT AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
919845 AT AT AT A
1 AT AT AT A
919852 GAAGTAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:920946 original size:17 final size:17
Alignment explanation
Indices: 920924--920956 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
920914 CGGTAAACAA
920924 ATTA-TTGATTTTATGAG
1 ATTATTTGA-TTTATGAG
920941 ATTATTTGATTTATGA
1 ATTATTTGATTTATGA
920957 AATATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (17 bp):
ATTATTTGATTTATGAG
Found at i:921624 original size:2 final size:2
Alignment explanation
Indices: 921617--921652 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
921607 CACTCTAGAC
921617 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
921653 AAACTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:922514 original size:25 final size:25
Alignment explanation
Indices: 922476--922524 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
922466 GCTTAATTTA
922476 AAATTTATAAAATTTTAGAGAAAAT
1 AAATTTATAAAATTTTAGAGAAAAT
*
922501 AAATTTA-AAGAATTTTATAGAAAA
1 AAATTTATAA-AATTTTAGAGAAAA
922525 ACAAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (25 bp):
AAATTTATAAAATTTTAGAGAAAAT
Found at i:923504 original size:65 final size:64
Alignment explanation
Indices: 923360--923519 Score: 185
Period size: 65 Copynumber: 2.5 Consensus size: 64
923350 TACACTAAGT
* * * * *
923360 GTGCATCGATGCATAAAATGCATTCGATGTTTTGAATAAGCCTAAGTGCATCGATGCATAGTGT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAACCTAAGTCCATCGATGCATAGAGA
* * * * * * *
923424 GTACATCGTTGCATAAAATGCAATCGATGTTTTCATTAAAATCTGAGTCCATCGATGCATGGAGA
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAT-AAACCTAAGTCCATCGATGCATAGAGA
**
923489 GTGCATCGATGCATAAGCTGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
923520 CAATTTATTC
Statistics
Matches: 78, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
64 32 0.41
65 46 0.59
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAACCTAAGTCCATCGATGCATAGAGA
Found at i:923555 original size:20 final size:20
Alignment explanation
Indices: 923530--923647 Score: 191
Period size: 20 Copynumber: 5.9 Consensus size: 20
923520 CAATTTATTC
923530 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
923550 ATTGGTGTATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
923570 ATTGGTGCATCGGTGCATGG
1 ATTGGTGCATCGATGCATGG
*
923590 ATTGGTGCATCGGTGCATGG
1 ATTGGTGCATCGATGCATGG
*
923610 ATTGGTGCATCGGTGCATGG
1 ATTGGTGCATCGATGCATGG
*
923630 ATTGGTGTATCGATGCAT
1 ATTGGTGCATCGATGCAT
923648 TCCTTAGAAA
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 93 1.00
ACGTcount: A:0.18, C:0.14, G:0.36, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:924842 original size:23 final size:23
Alignment explanation
Indices: 924812--924916 Score: 124
Period size: 23 Copynumber: 4.6 Consensus size: 23
924802 GCATGGCCTT
924812 GTGCATCGATGCACATTCAATGA
1 GTGCATCGATGCACATTCAATGA
* *
924835 GTGCATCGATGTACATTCAAGGA
1 GTGCATCGATGCACATTCAATGA
* *
924858 GTGCATCGGTGCACCTTC-ATG-
1 GTGCATCGATGCACATTCAATGA
* * *
924879 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTCAATGA
924902 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
924917 TGTTCAGTGA
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
21 15 0.22
22 4 0.06
23 37 0.54
24 12 0.18
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (23 bp):
GTGCATCGATGCACATTCAATGA
Found at i:924871 original size:46 final size:44
Alignment explanation
Indices: 924812--924916 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 44
924802 GCATGGCCTT
*
924812 GTGCATCGATGCACATTCAATGAGTGCATCGATGTACATTC-AAGG
1 GTGCATCGATGCACATTC-ATG-GTGCATCGATGCACATTCAAAGG
* * *
924857 AGTGCATCGGTGCACCTTCATGGTGTATCGATGCACATTCAAAGG
1 -GTGCATCGATGCACATTCATGGTGCATCGATGCACATTCAAAGG
924902 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
924917 TGTTCAGTGA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
44 17 0.33
45 19 0.37
46 16 0.31
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (44 bp):
GTGCATCGATGCACATTCATGGTGCATCGATGCACATTCAAAGG
Found at i:930796 original size:45 final size:46
Alignment explanation
Indices: 930736--930857 Score: 176
Period size: 46 Copynumber: 2.7 Consensus size: 46
930726 TACACTAAGT
* *
930736 GTGCATCGATGCATAAAATGCATTCGATGTTTTGAAT-AAGCCTAA
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAAACCTAA
* *
930781 GTGCATCGATGCATAAAATGCAATT-GATGTTTTCATTAAAACCTGA
1 GTGCATCGATGCATAAAATGC-ATTCGATGTTTTCAATAAAACCTAA
*
930827 GTGCATCGATGCATAAACTGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
930858 CAATTTATTC
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
45 34 0.49
46 35 0.51
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (46 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAAACCTAA
Found at i:935690 original size:20 final size:21
Alignment explanation
Indices: 935665--935705 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
935655 ATTTACGCGG
*
935665 AATCAAATTAAATA-TTACAC
1 AATCAAACTAAATATTTACAC
935685 AATCAAACTAAATATTTACAC
1 AATCAAACTAAATATTTACAC
935706 GAAAGAAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (21 bp):
AATCAAACTAAATATTTACAC
Found at i:936530 original size:29 final size:29
Alignment explanation
Indices: 936446--936531 Score: 77
Period size: 28 Copynumber: 3.0 Consensus size: 29
936436 GATGAATTTT
* *
936446 GGGATTAAATT-GAAATATTCAAAAGTTTA
1 GGGATAAAATTAGAAA-GTTCAAAAGTTTA
* * * *
936475 GGGATCAATTTAGAAAGGTC-ATAGTTTA
1 GGGATAAAATTAGAAAGTTCAAAAGTTTA
* *
936503 GGGATAAAATTAGGATGTTCAAAAGTTTA
1 GGGATAAAATTAGAAAGTTCAAAAGTTTA
936532 AGGACTAATT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
28 22 0.50
29 18 0.41
30 4 0.09
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.33
Consensus pattern (29 bp):
GGGATAAAATTAGAAAGTTCAAAAGTTTA
Found at i:936592 original size:60 final size:60
Alignment explanation
Indices: 936493--936611 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 60
936483 TTTAGAAAGG
* * * * * * *
936493 TCATAGTTTAGGGATAAAATTAGGATGTTCAAAAGTTTAAGGA-CTAATTTAGAATGAGAT
1 TCATAATTTAAGGATAAAATTAGAATCTTAAAAAATTTAAGGATC-AATTTAAAATGAGAT
*
936553 TCATAATTTAAGGATTAAATTAGAATCTTAAAAAATTTAAGGATCAATTTAAAATGAGA
1 TCATAATTTAAGGATAAAATTAGAATCTTAAAAAATTTAAGGATCAATTTAAAATGAGA
936612 GTTATAGTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
60 49 0.98
61 1 0.02
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.34
Consensus pattern (60 bp):
TCATAATTTAAGGATAAAATTAGAATCTTAAAAAATTTAAGGATCAATTTAAAATGAGAT
Found at i:940730 original size:162 final size:161
Alignment explanation
Indices: 940545--940868 Score: 630
Period size: 162 Copynumber: 2.0 Consensus size: 161
940535 ACAGAATAAA
940545 TCACTAATTATTTTTTCTTAAATTATTATCCTTATAAATGAATATATTCTCTATTCTAAACATAG
1 TCACTAATTATTTTTTCTTAAATTATTATCCTTATAAATGAATATATTCTCTATTCTAAACATAG
*
940610 ATGTAGTTTTTATTTCAGAGTTTTGTGATTATATTTTAATAAGAGATAACAATGATAATAATACT
66 ATGTAGTTTTTATTTCAGAGTTTTGTGATTATATTTTAATAAGAGATAACAATGATAATAATA-A
940675 TTCAATTAAGATTTACGTTTTGTTGATATTTG
130 TTCAATTAAGATTTACGTTTTGTTGATATTTG
940707 TCACTAATTATTTTTTCTTAAATTATTATCCTTATAAATGAATATATTCTCTATTCTAAACATAG
1 TCACTAATTATTTTTTCTTAAATTATTATCCTTATAAATGAATATATTCTCTATTCTAAACATAG
940772 ATGTAGTTTTTATTTCAGAGTTTTGTGATTATATTTTAATAAGAGATAACAATGATAATAATAAT
66 ATGTAGTTTTTATTTCAGAGTTTTGTGATTATATTTTAATAAGAGATAACAATGATAATAATAAT
940837 TCAATTAAGATTTACGTTTTGTTGATATTTG
131 TCAATTAAGATTTACGTTTTGTTGATATTTG
940868 T
1 T
940869 TTTTTTTTTA
Statistics
Matches: 161, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
161 33 0.20
162 128 0.80
ACGTcount: A:0.34, C:0.08, G:0.10, T:0.48
Consensus pattern (161 bp):
TCACTAATTATTTTTTCTTAAATTATTATCCTTATAAATGAATATATTCTCTATTCTAAACATAG
ATGTAGTTTTTATTTCAGAGTTTTGTGATTATATTTTAATAAGAGATAACAATGATAATAATAAT
TCAATTAAGATTTACGTTTTGTTGATATTTG
Found at i:941802 original size:43 final size:44
Alignment explanation
Indices: 941750--941850 Score: 143
Period size: 43 Copynumber: 2.3 Consensus size: 44
941740 AACCTAAATA
*
941750 TATTAATATTTTAAAATAATTAAAATAATTTA-TTTATAATAATT
1 TATT-ATATTTTAAAATAATTAAAATAATATATTTTATAATAATT
*
941794 TATTATATTTT-AAATAATTAAAATAATATATTTTATAATATTT
1 TATTATATTTTAAAATAATTAAAATAATATATTTTATAATAATT
*
941837 TACTATAATTTTAA
1 TATTAT-ATTTTAA
941851 CGATTAAGGA
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
42 18 0.35
43 23 0.45
44 9 0.18
45 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (44 bp):
TATTATATTTTAAAATAATTAAAATAATATATTTTATAATAATT
Found at i:942796 original size:12 final size:10
Alignment explanation
Indices: 942755--942795 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
942745 TTTATCACAC
942755 CAAATTCTCT
1 CAAATTCTCT
942765 CAAATTCTCT
1 CAAATTCTCT
942775 -AAATTTCTCT
1 CAAA-TTCTCT
*
942785 CAAATACTCT
1 CAAATTCTCT
942795 C
1 C
942796 TATTTAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:943059 original size:110 final size:111
Alignment explanation
Indices: 942919--943139 Score: 399
Period size: 110 Copynumber: 2.0 Consensus size: 111
942909 TGGAAATCAT
* *
942919 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
942984 TATTTAGTT-ATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTAATTCATTTAATGCATGATTATTAGATTAAGAATTAA
943029 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
943094 TAATTAGTTAATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTAATTCATTTAATGCATGATTATTAGATTAAGAATTAA
943140 TTTTTGTAAT
Statistics
Matches: 106, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
110 71 0.67
111 35 0.33
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTAATTCATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:951638 original size:20 final size:22
Alignment explanation
Indices: 951609--951661 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 22
951599 ATAGGGCAGA
*
951609 GGGAATCGAT-ACCC-TTGAAG
1 GGGAACCGATCACCCTTTGAAG
* *
951629 GGGAACCGATTCCCCCTTTGAAT
1 GGGAACCGA-TCACCCTTTGAAG
951652 GGGAACCGAT
1 GGGAACCGAT
951662 TACCTCCTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 8 0.30
21 1 0.04
22 4 0.15
23 14 0.52
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.21
Consensus pattern (22 bp):
GGGAACCGATCACCCTTTGAAG
Found at i:951672 original size:23 final size:22
Alignment explanation
Indices: 951620--951688 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 22
951610 GGAATCGATA
951620 CCCTTGAAGGGGAACCGATTCC
1 CCCTTGAAGGGGAACCGATTCC
*
951642 CCCTTTGAATGGGAACCGATTACC
1 CCC-TTGAAGGGGAACCGATT-CC
* * *
951666 TCCTTG-A-GGGAATCGATACC
1 CCCTTGAAGGGGAACCGATTCC
951686 CCC
1 CCC
951689 AATGGGTTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 4 0.10
21 9 0.22
22 4 0.10
23 19 0.47
24 4 0.10
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.22
Consensus pattern (22 bp):
CCCTTGAAGGGGAACCGATTCC
Found at i:957761 original size:51 final size:50
Alignment explanation
Indices: 957637--957765 Score: 134
Period size: 51 Copynumber: 2.5 Consensus size: 50
957627 CCCTACGTGG
* * * * *
957637 CGTATAACGCGCTGCAGGGGCTGTGCTATACCCACGTGTATGCCAGATCAT
1 CGTATAACACGATGCAGGGGC-GCGCTATACCCACGTGTACGCCAAATCAT
* * * *
957688 CGTATAGCACGGTACAAAGGGCGCGCTATATCCCACGTG-ACGCCAAATCAT
1 CGTATAACACGATGC-AGGGGCGCGCTATA-CCCACGTGTACGCCAAATCAT
957739 CGTATAACACGATGCAGGGGGCGCGCT
1 CGTATAACACGATGCA-GGGGCGCGCT
957766 TTACTACTAA
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
50 1 0.02
51 49 0.78
52 13 0.21
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.19
Consensus pattern (50 bp):
CGTATAACACGATGCAGGGGCGCGCTATACCCACGTGTACGCCAAATCAT
Found at i:960151 original size:18 final size:19
Alignment explanation
Indices: 960115--960151 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
960105 CTTGGATACT
*
960115 GGAGCTTTGATGCACAAGG
1 GGAGCTTAGATGCACAAGG
960134 GGAGCTTAGATG-ACAAGG
1 GGAGCTTAGATGCACAAGG
960152 TGTTCCAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.30, C:0.14, G:0.38, T:0.19
Consensus pattern (19 bp):
GGAGCTTAGATGCACAAGG
Found at i:963377 original size:22 final size:22
Alignment explanation
Indices: 963359--963401 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
963349 AACATTTATT
*
963359 TTAAAATTTTTAATTATTTTTC
1 TTAAAATTTTTAACTATTTTTC
*
963381 TTTAAATTTTTAACTATTTTT
1 TTAAAATTTTTAACTATTTTT
963402 ATATTCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (22 bp):
TTAAAATTTTTAACTATTTTTC
Found at i:965083 original size:175 final size:177
Alignment explanation
Indices: 964757--965101 Score: 640
Period size: 175 Copynumber: 2.0 Consensus size: 177
964747 ATGTGTTGTC
*
964757 AGGTCAAGAAATGTGCGATTCATAAGGTGGTTTTATTTAAAAAAAACATTTTGGGTAAATTACAT
1 AGGTCAAGAAATGTGCGATTCATAAGGCGGTTTTATTTAAAAAAAACATTTTGGGTAAATTACAT
964822 AAATAGCCCCTATTAGATATTATTTTTTTGAGTTTAACTATTAAAAATTATAAAATATTCTTTGA
66 AAATAGCCCCTATTAGATATTATTTTTTTGAGTTTAACTATTAAAAATTATAAAATATTCTTTGA
*
964887 TTATAAGGAATTGTTTTGTTAAATCACTCGATTATTAAAAAATTATA
131 TTATAAGAAATTGTTTTGTTAAATCACTCGATTATTAAAAAATTATA
*
964934 AGGTCAAGAATTGTGCGATTCATAAGGCGGTTTTATTT-AAAAAAACATTTTGGGTAAATTACAT
1 AGGTCAAGAAATGTGCGATTCATAAGGCGGTTTTATTTAAAAAAAACATTTTGGGTAAATTACAT
*
964998 AAATAGCCCCTCTTAGATATTATTTTTTTG-GTTTAACTATTAAAAATTATAAAATATTCTTTGA
66 AAATAGCCCCTATTAGATATTATTTTTTTGAGTTTAACTATTAAAAATTATAAAATATTCTTTGA
965062 TTATAAGAAATTGTTTTGTTAAATCACTCGATTATTAAAA
131 TTATAAGAAATTGTTTTGTTAAATCACTCGATTATTAAAA
965102 GTTACAAAGA
Statistics
Matches: 164, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
175 73 0.45
176 55 0.34
177 36 0.22
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (177 bp):
AGGTCAAGAAATGTGCGATTCATAAGGCGGTTTTATTTAAAAAAAACATTTTGGGTAAATTACAT
AAATAGCCCCTATTAGATATTATTTTTTTGAGTTTAACTATTAAAAATTATAAAATATTCTTTGA
TTATAAGAAATTGTTTTGTTAAATCACTCGATTATTAAAAAATTATA
Found at i:980250 original size:20 final size:21
Alignment explanation
Indices: 980206--980263 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 21
980196 TGTATGGTAG
980206 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T-AAGAA
980230 TGCATCGATGCACTG-AAGAA
1 TGCATCGATGCACTGTAAGAA
*
980250 TACA-CTGATGCACT
1 TGCATC-GATGCACT
980264 TCAATGGGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.03
20 16 0.50
23 2 0.06
24 13 0.41
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (21 bp):
TGCATCGATGCACTGTAAGAA
Found at i:981143 original size:20 final size:21
Alignment explanation
Indices: 981118--981156 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
981108 ATATGTGTTA
981118 TATGTGGT-CTTCGGGACATC
1 TATGTGGTCCTTCGGGACATC
981138 TATGTGGTCCTTCGGGACA
1 TATGTGGTCCTTCGGGACA
981157 AATTCTATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.15, C:0.21, G:0.31, T:0.33
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGACATC
Found at i:990077 original size:20 final size:20
Alignment explanation
Indices: 990052--990090 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
990042 TATCCACCAC
*
990052 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
990072 ATGCAACTATATGATCCTA
1 ATGCAACTATATGATCCTA
990091 TATGAGCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:991355 original size:22 final size:22
Alignment explanation
Indices: 991327--991374 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
991317 CTTAGAAGAA
991327 GAAGATATAGGGGACTAAAAAT
1 GAAGATATAGGGGACTAAAAAT
991349 GAAGATATAGGGGACTAAAAAT
1 GAAGATATAGGGGACTAAAAAT
991371 GAAG
1 GAAG
991375 TTAACGGTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.29, T:0.17
Consensus pattern (22 bp):
GAAGATATAGGGGACTAAAAAT
Found at i:991992 original size:21 final size:21
Alignment explanation
Indices: 991967--992007 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
991957 ATTATCCAAT
*
991967 AAACTTGAAATTCATAATAAC
1 AAACTTGAAATCCATAATAAC
991988 AAACTTGAAATCCATAATAA
1 AAACTTGAAATCCATAATAA
992008 TAAATCAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.27
Consensus pattern (21 bp):
AAACTTGAAATCCATAATAAC
Found at i:992508 original size:44 final size:42
Alignment explanation
Indices: 992446--992533 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 42
992436 GAAATATTAT
*
992446 ATTTTTAATGACAAAAAAATAGAAACAACACAAGACTTGACA
1 ATTTTTAATGACAAAAAAACAGAAACAACACAAGACTTGACA
*
992488 ATTTATTACATGACATAAAAACAGAAACAACACAAGACTTGACA
1 ATTT-TTA-ATGACAAAAAAACAGAAACAACACAAGACTTGACA
992532 AT
1 AT
992534 GAAAGACTAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 4 0.10
43 3 0.07
44 35 0.83
ACGTcount: A:0.53, C:0.16, G:0.09, T:0.22
Consensus pattern (42 bp):
ATTTTTAATGACAAAAAAACAGAAACAACACAAGACTTGACA
Found at i:994950 original size:17 final size:17
Alignment explanation
Indices: 994928--994962 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
994918 ACCGATCAAA
*
994928 TTAATATTGACAACTCT
1 TTAATACTGACAACTCT
994945 TTAATACTGACAACTCT
1 TTAATACTGACAACTCT
994962 T
1 T
994963 GTCGAACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (17 bp):
TTAATACTGACAACTCT
Found at i:996447 original size:22 final size:20
Alignment explanation
Indices: 996419--996461 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
996409 CTTTTTTGTT
996419 AAAGTCAACGGTCAGACCGGTC
1 AAAGTCAACGGTCA-A-CGGTC
*
996441 AAAGTCAATGGTCAACGGTC
1 AAAGTCAACGGTCAACGGTC
996461 A
1 A
996462 GACCGATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 1 0.05
22 13 0.65
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.16
Consensus pattern (20 bp):
AAAGTCAACGGTCAACGGTC
Found at i:996464 original size:29 final size:29
Alignment explanation
Indices: 996422--996479 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
996412 TTTTGTTAAA
*
996422 GTCAACGGTCAGACCGGTCAAAGTCAATG
1 GTCAACGGTCAGACCGATCAAAGTCAATG
996451 GTCAACGGTCAGACCGATCAAAGTCAATG
1 GTCAACGGTCAGACCGATCAAAGTCAATG
996480 TTTATATTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.17
Consensus pattern (29 bp):
GTCAACGGTCAGACCGATCAAAGTCAATG
Found at i:999071 original size:29 final size:30
Alignment explanation
Indices: 999021--999094 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 30
999011 TAACTTTTTT
* *
999021 GGTCAAAGTCAACAGTTAACGGTC-TAATA
1 GGTCAAAGTCAATAGTTAACGGTCATAACA
* *
999050 GGTCAAAGTCAATA-TTCCACGGTCATACCA
1 GGTCAAAGTCAATAGTT-AACGGTCATAACA
999080 -GTCAAAGTCAATAGT
1 GGTCAAAGTCAATAGT
999095 AAGACCAATC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
28 2 0.05
29 32 0.84
30 4 0.11
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.24
Consensus pattern (30 bp):
GGTCAAAGTCAATAGTTAACGGTCATAACA
Found at i:1001068 original size:10 final size:10
Alignment explanation
Indices: 1001042--1001078 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
1001032 AACTCATAAC
1001042 TATTTTTTAT
1 TATTTTTTAT
*
1001052 T-TATTTTAT
1 TATTTTTTAT
1001061 TATTTTTTAT
1 TATTTTTTAT
1001071 TATTTTTT
1 TATTTTTT
1001079 TGAATTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TATTTTTTAT
Found at i:1001213 original size:4 final size:4
Alignment explanation
Indices: 1001204--1001230 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1001194 ACCGCTAATT
1001204 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1001231 TATATTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:1001543 original size:2 final size:2
Alignment explanation
Indices: 1001536--1001591 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
1001526 AGTCTCATGA
1001536 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1001578 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
1001592 TTTCATATTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1002312 original size:18 final size:20
Alignment explanation
Indices: 1002279--1002315 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
1002269 TGGCGACTCC
1002279 AAAACATTTCTTCACAAAAT
1 AAAACATTTCTTCACAAAAT
1002299 AAAA-ATTT-TTCACAAAA
1 AAAACATTTCTTCACAAAA
1002316 AAATCGAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 4 0.24
20 4 0.24
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAACATTTCTTCACAAAAT
Found at i:1003124 original size:23 final size:23
Alignment explanation
Indices: 1003074--1003143 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
1003064 CACCACAGCT
*
1003074 CGTATAATTGCACCCGAAGTGCCA
1 CGTAGAATTGCA-CCGAAGTGCCA
* *
1003098 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
* *
1003121 CGTAGAATTACACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
1003144 TATAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 29 0.73
24 11 0.28
ACGTcount: A:0.27, C:0.27, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:1003394 original size:30 final size:30
Alignment explanation
Indices: 1003353--1003421 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
1003343 ACATAATTTG
* * *
1003353 TATCACGTAGACATATTATTTTCATACCTT
1 TATCACATAGACATATCATTTCCATACCTT
1003383 TATCACATAGACATATCATTTCCATACCTT
1 TATCACATAGACATATCATTTCCATACCTT
1003413 TATCACATA
1 TATCACATA
1003422 ACTCATATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.39
Consensus pattern (30 bp):
TATCACATAGACATATCATTTCCATACCTT
Found at i:1010079 original size:23 final size:23
Alignment explanation
Indices: 1010014--1010082 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
1010004 CACCACAACT
* *
1010014 CGTATAATTGCACCGAAATGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
1010037 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
* *
1010060 CGTAGAATTGTACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
1010083 TATAATAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:1010326 original size:30 final size:30
Alignment explanation
Indices: 1010290--1010360 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 30
1010280 TCACATAATT
* * *
1010290 TGTATCACGTAGACATATTATTTTCATACC
1 TGTATCACATAGACATATCATTTCCATACC
1010320 TGTATCACATAGACATATCATTTCCATACC
1 TGTATCACATAGACATATCATTTCCATACC
*
1010350 TTTATCACATA
1 TGTATCACATA
1010361 ACTCATATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
TGTATCACATAGACATATCATTTCCATACC
Found at i:1018960 original size:33 final size:33
Alignment explanation
Indices: 1018914--1018979 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
1018904 GTATCGACAG
1018914 AAGTATGAACGTTTAATTCATAGTCAATTGATT
1 AAGTATGAACGTTTAATTCATAGTCAATTGATT
*
1018947 AAGTATGAGCGTTTAATTCATAGTCAATTGATT
1 AAGTATGAACGTTTAATTCATAGTCAATTGATT
1018980 GAGGGTCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (33 bp):
AAGTATGAACGTTTAATTCATAGTCAATTGATT
Found at i:1026025 original size:59 final size:59
Alignment explanation
Indices: 1025902--1026014 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 59
1025892 TAAAGTACAT
* *
1025902 AAATGGTCCCCCAACTATAGGGTACTGCTTTATTGAGACCTCTGACTATTAAAAATAAAA
1 AAATGGTCCCCAAACTATAGGGTA-TACTTTATTGAGACCTCTGACTATTAAAAATAAAA
* *
1025962 AAATGGTCCCTAAACTATAGGAGT-TACTTTATTGAGTCCATC-GACTATTAAAA
1 AAATGGTCCCCAAACTATAGG-GTATACTTTATTGAGACC-TCTGACTATTAAAA
1026015 GTTATAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
59 24 0.51
60 21 0.45
61 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (59 bp):
AAATGGTCCCCAAACTATAGGGTATACTTTATTGAGACCTCTGACTATTAAAAATAAAA
Found at i:1028772 original size:15 final size:15
Alignment explanation
Indices: 1028728--1028774 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
1028718 TAATAATTTT
*
1028728 TATTTTAGTATTTATG
1 TATTTTA-TATTTATA
* *
1028744 T-TTATATGTTTATA
1 TATTTTATATTTATA
1028758 TATTTTATATTTATA
1 TATTTTATATTTATA
1028773 TA
1 TA
1028775 ATTTCTTAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
14 7 0.28
15 17 0.68
16 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (15 bp):
TATTTTATATTTATA
Found at i:1031022 original size:26 final size:28
Alignment explanation
Indices: 1030971--1031036 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 28
1030961 ATTTTGATGC
*
1030971 ATATTTTATCAAATTATACTTATAATAT
1 ATATTTTATCAAATTAAACTTATAATAT
1030999 ATATTTT-T-AAAGTTAAACTT-TAATAT
1 ATATTTTATCAAA-TTAAACTTATAATAT
*
1031025 -TAATTTAT-AAAT
1 ATATTTTATCAAAT
1031037 ATTTAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
25 6 0.18
26 13 0.38
27 8 0.24
28 7 0.21
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.50
Consensus pattern (28 bp):
ATATTTTATCAAATTAAACTTATAATAT
Found at i:1039238 original size:21 final size:21
Alignment explanation
Indices: 1039214--1039253 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1039204 AAGACTTTAT
1039214 TTTCAAAATAT-AAAAATGATA
1 TTTCAAAAT-TGAAAAATGATA
1039235 TTTCAAAATTGAAAAATGA
1 TTTCAAAATTGAAAAATGA
1039254 AAATAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (21 bp):
TTTCAAAATTGAAAAATGATA
Found at i:1043543 original size:18 final size:18
Alignment explanation
Indices: 1043520--1043554 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1043510 AATTTATTGT
1043520 TTTAATTAATGTT-TTTTA
1 TTTAATT-ATGTTGTTTTA
1043538 TTTAATTATGTTGTTTT
1 TTTAATTATGTTGTTTT
1043555 CATGAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (18 bp):
TTTAATTATGTTGTTTTA
Found at i:1045097 original size:20 final size:20
Alignment explanation
Indices: 1045072--1045114 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
1045062 AATTTGTGCC
1045072 ATTTCAAATTGTTTATGAAT
1 ATTTCAAATTGTTTATGAAT
*
1045092 ATTTCACATTGTTTATGAAT
1 ATTTCAAATTGTTTATGAAT
1045112 ATT
1 ATT
1045115 GAATTATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (20 bp):
ATTTCAAATTGTTTATGAAT
Found at i:1045322 original size:13 final size:13
Alignment explanation
Indices: 1045291--1045319 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1045281 GGGAGTAGTA
1045291 ATTTCAAAAATTG
1 ATTTCAAAAATTG
1045304 ATTTCAAAAATT-
1 ATTTCAAAAATTG
1045316 ATTT
1 ATTT
1045320 TCATAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (13 bp):
ATTTCAAAAATTG
Found at i:1047571 original size:228 final size:227
Alignment explanation
Indices: 1047154--1047606 Score: 687
Period size: 228 Copynumber: 2.0 Consensus size: 227
1047144 TTCTTGAGGG
1047154 AGTTGTAAGGTTATCTCTTTGGCCTCAAAAGAAAGAACAAATTAGTGAATTTGTTGGAAAATCCT
1 AGTTGTAAGGTTATCTCTTTGGCCTCAAAAGAAAGAACAAATTAGTGAATTTGTTGGAAAATCCT
* * * *
1047219 TAGTGTGGATAGCTAAGGTAGTGGACGTAGACTTTGGTTAATAAAGTCGAACCACTCTAAATCGA
66 TAGTGTGGATAGCTAAGGTAGTGGAAGTAGACTTTAGTTAAGAAAGTAGAACCACTCTAAATCGA
*
1047284 TGTGCAATTTCTTTCAATTTTCTGCAAAAGCTTCCACCAAAATTTTTATTGCCAATTCACCCCCC
131 TGTGCAATTTCTTTCAATTTTCTGCAAAAGCTTCCACCAAAATATTTATTGCCAATTCA-CCCCC
* * *
1047349 TCTTGGTCGATTCCGTCAATTGATTAACTCAACA
195 TCTTGATCGATT-CATCAATCGATTAACTCAACA
* * *
1047383 AGTTGTAAGGTTA-CTCTTTGTCCTCAAAAGAAAGAATAAATTAGTGAATTTGTTGGAAAATTCT
1 AGTTGTAAGGTTATCTCTTTGGCCTCAAAAGAAAGAACAAATTAGTGAATTTGTTGGAAAATCCT
* * * *
1047447 TAGTGTGGATAGCTAAGGTAGTGGAAGTAGACTTTAGTTGAGAATGTAGAACCACTCTAAATTGT
66 TAGTGTGGATAGCTAAGGTAGTGGAAGTAGACTTTAGTTAAGAAAGTAGAACCACTCTAAATCGA
**
1047512 TGTGCAAATATT-TTT-AATTTTCTGCAAAAGCTTCCACCAAAATATTTATTGTTAATTCACCCC
131 TGTGC-AAT-TTCTTTCAATTTTCTGCAAAAGCTTCCACCAAAATATTTATTGCCAATTCACCCC
*
1047575 CTCTTGATCGATTCATCGATCGATTAACTCAA
194 CTCTTGATCGATTCATCAATCGATTAACTCAA
1047607 TAGTAAGGTT
Statistics
Matches: 204, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
226 16 0.08
227 16 0.08
228 151 0.74
229 19 0.09
230 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (227 bp):
AGTTGTAAGGTTATCTCTTTGGCCTCAAAAGAAAGAACAAATTAGTGAATTTGTTGGAAAATCCT
TAGTGTGGATAGCTAAGGTAGTGGAAGTAGACTTTAGTTAAGAAAGTAGAACCACTCTAAATCGA
TGTGCAATTTCTTTCAATTTTCTGCAAAAGCTTCCACCAAAATATTTATTGCCAATTCACCCCCT
CTTGATCGATTCATCAATCGATTAACTCAACA
Found at i:1052596 original size:20 final size:20
Alignment explanation
Indices: 1052565--1052636 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1052555 TTGATTTAAT
*
1052565 ATGTTGGAAATT-AATGTTTGA
1 ATGTT-GAAATTGAA-GTTAGA
1052586 ATGTTGAAATTGAAGTTAGA
1 ATGTTGAAATTGAAGTTAGA
1052606 ATGTTGAAATTGAAGTTAGA
1 ATGTTGAAATTGAAGTTAGA
1052626 ATG-TGAAATTG
1 ATGTTGAAATTG
1052637 GATTATTTTG
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 8 0.16
20 34 0.69
21 7 0.14
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.38
Consensus pattern (20 bp):
ATGTTGAAATTGAAGTTAGA
Found at i:1054134 original size:65 final size:62
Alignment explanation
Indices: 1054053--1054197 Score: 157
Period size: 61 Copynumber: 2.3 Consensus size: 62
1054043 GCAGGTTTAT
* * * * **
1054053 ATTAGCACTAGTGTGTAAGGATACTAAGTGAATGTGTTGGGCACAAACTTATGTGTCATATTTGG
1 ATTAGCACTAGAGTGTAA-GA-ACT-AGTGAAGGTGGTGGGCACAAACTTATGTATCATATCCGG
* * *
1054118 ATTAGCACTAGAGTGTAA-ACCTAGTGTAGGTGGTGGGCACAACCTTATGTATCATATCCGG
1 ATTAGCACTAGAGTGTAAGAACTAGTGAAGGTGGTGGGCACAAACTTATGTATCATATCCGG
* *
1054179 ATTAGCACTATAGCGTAAG
1 ATTAGCACTAGAGTGTAAG
1054198 CTTAGTGCAG
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
61 48 0.71
62 2 0.03
63 1 0.01
65 17 0.25
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (62 bp):
ATTAGCACTAGAGTGTAAGAACTAGTGAAGGTGGTGGGCACAAACTTATGTATCATATCCGG
Found at i:1063141 original size:2 final size:2
Alignment explanation
Indices: 1063134--1063208 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
1063124 TCTATTTGGA
1063134 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1063176 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 A
1063209 CCTACGGCTA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1067525 original size:58 final size:59
Alignment explanation
Indices: 1067462--1067607 Score: 168
Period size: 60 Copynumber: 2.5 Consensus size: 59
1067452 AAATTGGTAA
* ** * * *
1067462 CTAAACTTTTTAGTATTTTAATTTTATCTCTAAATTATGA-CTCATTCTAAATGAGTCC
1 CTAAACTTTTGAACATTTTAATTTCATCTCTAAACTATGACCTCATTCTAAATCAGTCC
* *
1067520 TTAAACTTTTGAACATTTTAATTTCATCTCTAAACTATGACCCTCTTTCTAAATCAGTCC
1 CTAAACTTTTGAACATTTTAATTTCATCTCTAAACTATGA-CCTCATTCTAAATCAGTCC
* * **
1067580 CCAAACTTTTGAATATTCCAATTTCATC
1 CTAAACTTTTGAACATTTTAATTTCATC
1067608 CAAATATGTA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
58 34 0.47
60 39 0.53
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.43
Consensus pattern (59 bp):
CTAAACTTTTGAACATTTTAATTTCATCTCTAAACTATGACCTCATTCTAAATCAGTCC
Found at i:1067778 original size:29 final size:29
Alignment explanation
Indices: 1067747--1067839 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 29
1067737 ATGAAATTGG
*
1067747 AATGTGCAAAAGTTTGAGGACCAATTTAG
1 AATGTGCAAAAGTTTGAGGACCAATTTAA
* ** *
1067776 AATGAATGTC-ATAGTTTGAGGATGAAATTAA
1 AATG--TG-CAAAAGTTTGAGGACCAATTTAA
* * *
1067807 AATATTCAAAAGTTTGAGGACTAATTTAA
1 AATGTGCAAAAGTTTGAGGACCAATTTAA
1067836 AATG
1 AATG
1067840 ATAGTCATAA
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
28 1 0.02
29 25 0.52
31 21 0.44
32 1 0.02
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.31
Consensus pattern (29 bp):
AATGTGCAAAAGTTTGAGGACCAATTTAA
Found at i:1067801 original size:60 final size:60
Alignment explanation
Indices: 1067731--1067870 Score: 169
Period size: 60 Copynumber: 2.3 Consensus size: 60
1067721 GTACGTATAT
** * * *
1067731 TTTG-GGATGAAATTGGAATGTGCAAAAGTTTGAGGACCAATTTAGAATGA-ATGTCATAG
1 TTTGAGGATGAAATTAAAATATGCAAAAGTTTGAGGACCAATTTAAAATGATA-GTCATAA
* *
1067790 TTTGAGGATGAAATTAAAATATTCAAAAGTTTGAGGACTAATTTAAAATGATAGTCATAA
1 TTTGAGGATGAAATTAAAATATGCAAAAGTTTGAGGACCAATTTAAAATGATAGTCATAA
1067850 TTT-AGAGATGAAATTTAAAAT
1 TTTGAG-GATGAAA-TTAAAAT
1067871 GAGGATCATA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
59 6 0.09
60 56 0.80
61 8 0.11
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (60 bp):
TTTGAGGATGAAATTAAAATATGCAAAAGTTTGAGGACCAATTTAAAATGATAGTCATAA
Found at i:1068180 original size:47 final size:47
Alignment explanation
Indices: 1068125--1068221 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
1068115 TGTCACATTC
1068125 TTTTACATCTATTAAAATAAATCTATCAATCATTTTATAGGGATAAT
1 TTTTACATCTATTAAAATAAATCTATCAATCATTTTATAGGGATAAT
1068172 TTTTACATCTATTAAAATAAATCTATCAATCATTTTATAGGGATAAT
1 TTTTACATCTATTAAAATAAATCTATCAATCATTTTATAGGGATAAT
1068219 TTT
1 TTT
1068222 GTTATTTCTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.44
Consensus pattern (47 bp):
TTTTACATCTATTAAAATAAATCTATCAATCATTTTATAGGGATAAT
Found at i:1073742 original size:2 final size:2
Alignment explanation
Indices: 1073735--1073772 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1073725 TTTAGTCATA
1073735 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1073773 GTAAATACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1079950 original size:21 final size:21
Alignment explanation
Indices: 1079903--1079952 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
1079893 TATCAATTTA
*
1079903 GTTAAAGGAAAAATAAATATTT
1 GTTAAATGAAAAATAAATA-TT
*
1079925 TTTAAATGAAAAGATAAATA-T
1 GTTAAATGAAAA-ATAAATATT
1079946 GTTAAAT
1 GTTAAAT
1079953 TAATAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 7 0.29
22 10 0.42
23 7 0.29
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.34
Consensus pattern (21 bp):
GTTAAATGAAAAATAAATATT
Found at i:1084061 original size:26 final size:26
Alignment explanation
Indices: 1084028--1084091 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
1084018 CCTACTGTCG
*
1084028 TTTATACACTATTAAATCATACTATT
1 TTTATACACTATTAAATCATACTATA
* *
1084054 TTTATACAC-ATTTAAATCCTACTGTA
1 TTTATACACTA-TTAAATCATACTATA
*
1084080 TTTATATACTAT
1 TTTATACACTAT
1084092 GATATCCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 1 0.03
26 30 0.94
27 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.02, T:0.47
Consensus pattern (26 bp):
TTTATACACTATTAAATCATACTATA
Found at i:1085193 original size:51 final size:51
Alignment explanation
Indices: 1085111--1085209 Score: 119
Period size: 51 Copynumber: 1.9 Consensus size: 51
1085101 TTTTCATTTA
* * * * *
1085111 AAATCCCTAGATTCCCCGTATTTCTCCTTTCTTCCACATTAGCTTCCATTG
1 AAATCCCTAGACTCACCATATTTCTCCTTTCTCCCACATTAACTTCCATTG
* *
1085162 AAATCCCTAGACTCACCATGTTTC-CCTTTTCTCCCTCATTAACTTCCA
1 AAATCCCTAGACTCACCATATTTCTCC-TTTCTCCCACATTAACTTCCA
1085210 ATTTCGCTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 2 0.05
51 38 0.95
ACGTcount: A:0.21, C:0.35, G:0.06, T:0.37
Consensus pattern (51 bp):
AAATCCCTAGACTCACCATATTTCTCCTTTCTCCCACATTAACTTCCATTG
Found at i:1090487 original size:51 final size:51
Alignment explanation
Indices: 1090335--1090488 Score: 236
Period size: 51 Copynumber: 3.0 Consensus size: 51
1090325 CCTTTTCATT
* * * * * * * *
1090335 TGAAATCCCTAGATTCCCCGTATTTCCCCTTTCTTCCACATTAGCTTCCAT
1 TGAAATCCCTAGACTCACCATATTTCCCTTTTCTCCCTCATTAACTTCCAA
1090386 TGAAATCCCTAGACTCACCATATTTCCCTTTTCTCCCTCATTAACTTCCAA
1 TGAAATCCCTAGACTCACCATATTTCCCTTTTCTCCCTCATTAACTTCCAA
1090437 TGAAATCCCTAGACTCACCATATTTCCCTTTTCTCCCTCATTAACTTCCAA
1 TGAAATCCCTAGACTCACCATATTTCCCTTTTCTCCCTCATTAACTTCCAA
1090488 T
1 T
1090489 TTCTCTTTAT
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 95 1.00
ACGTcount: A:0.23, C:0.35, G:0.05, T:0.36
Consensus pattern (51 bp):
TGAAATCCCTAGACTCACCATATTTCCCTTTTCTCCCTCATTAACTTCCAA
Found at i:1093851 original size:15 final size:16
Alignment explanation
Indices: 1093812--1093851 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
1093802 AGTGGTGTTC
1093812 ATATAAAATTTTATTT
1 ATATAAAATTTTATTT
1093828 ATATAAAATTTCTA-TT
1 ATATAAAATTT-TATTT
1093844 AT-TAAAAT
1 ATATAAAAT
1093852 ATATATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.26
16 15 0.65
17 2 0.09
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATAAAATTTTATTT
Found at i:1096676 original size:2 final size:2
Alignment explanation
Indices: 1096669--1096700 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1096659 TATAGTTTCA
1096669 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1096701 TTTTAGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1097603 original size:83 final size:83
Alignment explanation
Indices: 1097464--1097643 Score: 342
Period size: 83 Copynumber: 2.2 Consensus size: 83
1097454 TAAACTTATC
*
1097464 AAATTTTAGAGAAAAATTAAATTTGTAAAATTTTAAGAAAGAGAATAATAGGTTATCAATAGAAA
1 AAATTTAAGAGAAAAATTAAATTTGTAAAATTTTAAGAAAGAGAATAATAGGTTATCAATAGAAA
1097529 AATATAAAAGAAATTACA
66 AATATAAAAGAAATTACA
1097547 AAATTTAAGAGAAAAATTAAATTTGTAAAATTTTAAGAAAGAGAATAATAGGTTATCAATAGAAA
1 AAATTTAAGAGAAAAATTAAATTTGTAAAATTTTAAGAAAGAGAATAATAGGTTATCAATAGAAA
1097612 AATATAAAAGAAATTACA
66 AATATAAAAGAAATTACA
1097630 AAATTTAAGGAGAA
1 AAATTTAA-GAGAA
1097644 CGATTGTCTT
Statistics
Matches: 95, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
83 90 0.95
84 5 0.05
ACGTcount: A:0.57, C:0.02, G:0.13, T:0.28
Consensus pattern (83 bp):
AAATTTAAGAGAAAAATTAAATTTGTAAAATTTTAAGAAAGAGAATAATAGGTTATCAATAGAAA
AATATAAAAGAAATTACA
Found at i:1098039 original size:2 final size:2
Alignment explanation
Indices: 1098034--1098061 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1098024 TGTTCATTAT
1098034 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1098062 AGTTTTCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1098273 original size:16 final size:16
Alignment explanation
Indices: 1098254--1098294 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
1098244 ATTAGTTAAA
1098254 AATTAAAATGTAATTT
1 AATTAAAATGTAATTT
1098270 AATTAAAATGTAATTT
1 AATTAAAATGTAATTT
1098286 AATTAAAAT
1 AATTAAAAT
1098295 ACAATATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (16 bp):
AATTAAAATGTAATTT
Found at i:1098785 original size:23 final size:23
Alignment explanation
Indices: 1098735--1098784 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
1098725 AAATATTATA
*
1098735 TTTTAATTAAATTACATTTAAAG
1 TTTTAATTAAATTACAATTAAAG
* *
1098758 TTTTAATTAAGTTATAATTATAAG
1 TTTTAATTAAATTACAATTA-AAG
1098782 TTT
1 TTT
1098785 AGTACTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (23 bp):
TTTTAATTAAATTACAATTAAAG
Found at i:1098842 original size:16 final size:16
Alignment explanation
Indices: 1098817--1098855 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1098807 TATAAATTAA
* *
1098817 ATTAATGGTGCTCATC
1 ATTAACGGTGCTAATC
1098833 ATTAACGGTGCTAATC
1 ATTAACGGTGCTAATC
1098849 ATTAACG
1 ATTAACG
1098856 ATATTCATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (16 bp):
ATTAACGGTGCTAATC
Found at i:1099237 original size:2 final size:2
Alignment explanation
Indices: 1099230--1099271 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1099220 GAGAAGATAA
1099230 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1099272 CCTCTTTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1099374 original size:2 final size:2
Alignment explanation
Indices: 1099367--1099481 Score: 216
Period size: 2 Copynumber: 58.5 Consensus size: 2
1099357 GCTTACAACT
1099367 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1099409 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1099450 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1099482 GAAAGAAAAA
Statistics
Matches: 111, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
1 2 0.02
2 109 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1099841 original size:7 final size:7
Alignment explanation
Indices: 1099829--1099886 Score: 50
Period size: 7 Copynumber: 8.3 Consensus size: 7
1099819 TTATAATAAA
1099829 ATTAATT
1 ATTAATT
1099836 ATTAATT
1 ATTAATT
1099843 ATTAA-T
1 ATTAATT
1099849 ATTATATTT
1 ATTA-A-TT
*
1099858 ATTATTGT
1 ATTAAT-T
1099866 ATTAA-T
1 ATTAATT
*
1099872 ATAAATT
1 ATTAATT
1099879 A-TAATT
1 ATTAATT
1099885 AT
1 AT
1099887 GTTACATCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
6 15 0.37
7 16 0.39
8 5 0.12
9 5 0.12
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (7 bp):
ATTAATT
Found at i:1099873 original size:18 final size:19
Alignment explanation
Indices: 1099829--1099880 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
1099819 TTATAATAAA
1099829 ATTAATTATTAATTATTAAT
1 ATTAA-TATTAATTATTAAT
* *
1099849 ATT-ATATTTATTATT-GT
1 ATTAATATTAATTATTAAT
*
1099866 ATTAATATAAATTAT
1 ATTAATATTAATTAT
1099881 AATTATGTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 4 0.15
18 19 0.70
19 1 0.04
20 3 0.11
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
ATTAATATTAATTATTAAT
Found at i:1102624 original size:21 final size:22
Alignment explanation
Indices: 1102586--1102626 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1102576 TTAAAAAGTA
*
1102586 TAAAGGAAGTATCGATACTCAC
1 TAAAGGAAGTACCGATACTCAC
1102608 TAAAGGAA-TACCGATACTC
1 TAAAGGAAGTACCGATACTC
1102627 TCTGTCCTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (22 bp):
TAAAGGAAGTACCGATACTCAC
Found at i:1102876 original size:3 final size:3
Alignment explanation
Indices: 1102856--1102895 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
1102846 TTTATTCGGG
* *
1102856 TTA TTA TCA TTA TCA TTA TTA TTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
1102896 GACTACTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:1102886 original size:19 final size:19
Alignment explanation
Indices: 1102859--1102895 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1102849 ATTCGGGTTA
1102859 TTATCATTATCATTATTAT
1 TTATCATTATCATTATTAT
* *
1102878 TTATTATTATTATTATTA
1 TTATCATTATCATTATTA
1102896 GACTACTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATCATTATCATTATTAT
Found at i:1102889 original size:16 final size:16
Alignment explanation
Indices: 1102864--1102894 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1102854 GGTTATTATC
1102864 ATTATCATTATTATTT
1 ATTATCATTATTATTT
*
1102880 ATTATTATTATTATT
1 ATTATCATTATTATT
1102895 AGACTACTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTATCATTATTATTT
Found at i:1109298 original size:32 final size:33
Alignment explanation
Indices: 1109261--1109332 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
1109251 ACTACATCTA
* *
1109261 TTTGAGTCAC-CAAAGTCATACCATTACCCCTC
1 TTTGAGGCACTCAAAATCATACCATTACCCCTC
* * *
1109293 TTTGAGGCACTCAAAATTATACCCTTACCTCTC
1 TTTGAGGCACTCAAAATCATACCATTACCCCTC
1109326 TTTGAGG
1 TTTGAGG
1109333 AAATAAAGTC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 9 0.26
33 25 0.74
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (33 bp):
TTTGAGGCACTCAAAATCATACCATTACCCCTC
Found at i:1109897 original size:6 final size:6
Alignment explanation
Indices: 1109888--1110000 Score: 90
Period size: 6 Copynumber: 18.2 Consensus size: 6
1109878 ATATTCGAAA
* *
1109888 AAAAAG AAAAA- AAAGAG AAAAAG AAAAAG --AAAG AAACCAAC AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA--AAG AAAAAG
*
1109935 AAAAAATG AAAAAG AAAAAG AAAAAGAG AAAAAG AAAAATG -AAAAG GAAAAG
1 -AAAAA-G AAAAAG AAAAAG -AAAA-AG AAAAAG AAAAA-G AAAAAG AAAAAG
*
1109987 GAAAAG AAGAAAG A
1 AAAAAG AA-AAAG A
1110001 GAACAAATCA
Statistics
Matches: 90, Mismatches: 5, Indels: 23
0.76 0.04 0.19
Matches are distributed among these distances:
4 4 0.04
5 5 0.06
6 49 0.54
7 24 0.27
8 8 0.09
ACGTcount: A:0.77, C:0.03, G:0.19, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:1109916 original size:14 final size:14
Alignment explanation
Indices: 1109897--1110003 Score: 84
Period size: 13 Copynumber: 7.7 Consensus size: 14
1109887 AAAAAAGAAA
1109897 AAAAAGAGAAAAAG
1 AAAAAGAGAAAAAG
*
1109911 AAAAAGAAAGAAACCAAC
1 AAAAAG--AGAAA--AAG
1109929 AAAAAGA-AAAAATG
1 AAAAAGAGAAAAA-G
1109943 -AAAA-AGAAAAAG
1 AAAAAGAGAAAAAG
1109955 AAAAAGAGAAAAAG
1 AAAAAGAGAAAAAG
*
1109969 AAAAA-TG-AAAAG
1 AAAAAGAGAAAAAG
*
1109981 GAAAAG-G-AAAAG
1 AAAAAGAGAAAAAG
1109993 AAGAAAGAGAA
1 AA-AAAGAGAA
1110004 CAAATCAAGT
Statistics
Matches: 76, Mismatches: 5, Indels: 23
0.73 0.05 0.22
Matches are distributed among these distances:
12 18 0.24
13 20 0.26
14 20 0.26
15 4 0.05
16 6 0.08
18 8 0.11
ACGTcount: A:0.76, C:0.03, G:0.20, T:0.02
Consensus pattern (14 bp):
AAAAAGAGAAAAAG
Found at i:1109978 original size:33 final size:33
Alignment explanation
Indices: 1109888--1110008 Score: 104
Period size: 32 Copynumber: 3.6 Consensus size: 33
1109878 ATATTCGAAA
* * *
1109888 AAAAAGAAAAAAAAGAGAAAAAGAAAA-AGAAAG
1 AAAAAGAAGAAAAAGA-AAAATGAAAAGAAAAAG
** *
1109921 -AAACCAACAAAAAGAAAAAATGAAAAAGAAAAAG
1 AAAAAGAAGAAAAAG-AAAAATG-AAAAGAAAAAG
*
1109955 AAAAAG-AGAAAAAGAAAAATGAAAAGGAAAAG
1 AAAAAGAAGAAAAAGAAAAATGAAAAGAAAAAG
* *
1109987 GAAAAGAAGAAAGAGAACAAAT
1 AAAAAGAAGAAAAAGAA-AAAT
1110009 CAAGTACTTG
Statistics
Matches: 71, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
32 31 0.44
33 21 0.30
34 16 0.23
35 3 0.04
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.02
Consensus pattern (33 bp):
AAAAAGAAGAAAAAGAAAAATGAAAAGAAAAAG
Found at i:1112576 original size:259 final size:259
Alignment explanation
Indices: 1112110--1112837 Score: 1064
Period size: 259 Copynumber: 2.8 Consensus size: 259
1112100 AGTTTCTTAC
* * * * * * * *
1112110 TTAGTAAGTCCTTTGGGCCATCAATAACTCTTCCGAGTATGATGATTAAATCTTTTGGGTCATCT
1 TTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCT
* * * * * * *
1112175 GTCAATCGTTCGAGCAAGATGTTAAGTCTTTTGGGCTATCTATAAGACATTCGGGCAAGAAGTTT
66 GTCAGTCTTTCGAGCAAGATGTTAAGTCTTTCGGGCCATCTATAAGACCTTCGGGCAGGATGTTT
* * *
1112240 TCACATGTTTATGAAAAATGAGAAAAGAAAATTTCAAAATTTCTCATTTTAATATTTTCAGAAGA
131 TCACATGTTTATGAAAAATGAGAAAAGAAATTTTCAAAATTTCTCATTTTAATGTTTTTAGAAGA
* *
1112305 TGAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTTTTACCCAGTAAACTATTTCCAAAA
196 TGAAATTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAA
* * * * *
1112369 TTGGTAAGTCCTTCGAGCCATCAGTAAGTCTTTTGAGCACGATGATTAAATCCTTCGAGTTATCT
1 TTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCT
* * * * * *
1112434 GTTAGTCTTTCGAGCAAAATGTTTAGTCATTCAGGCCATCTATAAGACCTTCGGGTAGGATGTTT
66 GTCAGTCTTTCGAGCAAGATGTTAAGTCTTTCGGGCCATCTATAAGACCTTCGGGCAGGATGTTT
* * * * *
1112499 TCATATGTTTGTGAAAAATGATAAAAGTAATTTTCAAAATTTCTCATTTTAATGTTTTTGGAAGA
131 TCACATGTTTATGAAAAATGAGAAAAGAAATTTTCAAAATTTCTCATTTTAATGTTTTTAGAAGA
* *
1112564 TGAAACTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAA
196 TGAAATTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAA
1112628 TTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCT
1 TTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCT
*
1112693 GTCAGTCTTTCGAGCAAGATGTTAAGTCTTTCGGGCCATCTATAAGACCTTTGGGCAGGATGTTT
66 GTCAGTCTTTCGAGCAAGATGTTAAGTCTTTCGGGCCATCTATAAGACCTTCGGGCAGGATGTTT
*
1112758 TCACATATTTATGAAAAATGAGAAAA-ACAATTTTCAAAATTTCTCATTTTAATGTTTTTAGAAG
131 TCACATGTTTATGAAAAATGAGAAAAGA-AATTTTCAAAATTTCTCATTTTAATGTTTTTAGAAG
1112822 AT-AAATTTTTTGAAAA
195 ATGAAA-TTTTTGAAAA
1112838 TAGTTTACTA
Statistics
Matches: 410, Mismatches: 57, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
258 3 0.01
259 407 0.99
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.36
Consensus pattern (259 bp):
TTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCT
GTCAGTCTTTCGAGCAAGATGTTAAGTCTTTCGGGCCATCTATAAGACCTTCGGGCAGGATGTTT
TCACATGTTTATGAAAAATGAGAAAAGAAATTTTCAAAATTTCTCATTTTAATGTTTTTAGAAGA
TGAAATTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAA
Found at i:1112683 original size:42 final size:41
Alignment explanation
Indices: 1112636--1112732 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 41
1112626 AATTAGTAAG
*
1112636 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAA
1 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAGATG-TTAAA
* * * * *
1112678 TCCTTCGAGTCATCTGTCAGTCTTTCGAGCAAGATGTTAAG
1 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAGATGTTAAA
*
1112719 TCTTTCGGGCCATC
1 TCCTTCGGGCCATC
1112733 TATAAGACCT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 15 0.33
42 31 0.67
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.33
Consensus pattern (41 bp):
TCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAGATGTTAAA
Found at i:1116146 original size:22 final size:22
Alignment explanation
Indices: 1116121--1116165 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1116111 GTTTTATTTA
* * *
1116121 TATTATGGATTATTAGATTTTG
1 TATTATGAACTATTAAATTTTG
*
1116143 TATTTTGAACTATTAAATTTTG
1 TATTATGAACTATTAAATTTTG
1116165 T
1 T
1116166 GTTTCGATGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.02, G:0.13, T:0.56
Consensus pattern (22 bp):
TATTATGAACTATTAAATTTTG
Found at i:1116810 original size:15 final size:16
Alignment explanation
Indices: 1116785--1116815 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1116775 GGGTAGTCGC
1116785 AAAATCTGGGTACCCG
1 AAAATCTGGGTACCCG
1116801 AAAA-CTGGGTACCCG
1 AAAATCTGGGTACCCG
1116816 GAACATCCGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.32, C:0.26, G:0.26, T:0.16
Consensus pattern (16 bp):
AAAATCTGGGTACCCG
Found at i:1122935 original size:42 final size:41
Alignment explanation
Indices: 1122871--1122952 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
1122861 AATTGGCAAG
*
1122871 TCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAA
1 TCCTTTGGGCCATCAGTAAGTCTTTCGAGCAAGATG-TTAAA
* * * * *
1122913 TCCTTTTGGTCATCTGTCAGTCTTTTGAGCAAGATGTTAA
1 TCCTTTGGGCCATCAGTAAGTCTTTCGAGCAAGATGTTAA
1122953 GTCCCTCGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 4 0.12
42 30 0.88
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (41 bp):
TCCTTTGGGCCATCAGTAAGTCTTTCGAGCAAGATGTTAAA
Found at i:1123370 original size:239 final size:239
Alignment explanation
Indices: 1122885--1123864 Score: 997
Period size: 239 Copynumber: 4.0 Consensus size: 239
1122875 TTGGGCCATC
* * * *
1122885 AGTAAGTCTTTCGAGCATGATGATTAAATCCTTTTGGTCATCTGTCAGTCTTTTGAGCAAGATGT
1 AGTAAGTCTTTCGAGCATGACGATTAAATCC-TTCGGTCATATGTCAGTCTTTCGAGCAAGATGT
* ** *
1122950 TAAGTCCCTCGAGCCATCTATAAGATATTCAGGTAGGATGTTTTCACATGTTTGTGAAAAAATGA
65 TAAGTCCTTCGAGCCATCTATAAGACCTTCAGGCAGGATGTTTTCACATGTTTGTGAAAAAATGA
*
1123015 GAAAACCAATTTTCAAAATTTCTCATTTTAATGTTTTCAGAAGATG-AACTTTTTGAAAAGTAAG
130 GAAAAACAATTTTCAAAATTTCTCATTTTAATGTTTTCAGAAGATGTAA-TTTTTGAAAAGTAAG
* * * *
1123079 GAAGCAATTTCCAAAGTTTCTTACCTAGTAAATTATTTCCAAAATC
194 AAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATT
* * *
1123125 AGTAAGTCTTTCGAGCATGACGATTAAATCCTCCAGGTCATATGTTAGTCTTTCGAGTAAGATGT
1 AGTAAGTCTTTCGAGCATGACGATTAAATCCTTC-GGTCATATGTCAGTCTTTCGAGCAAGATGT
* * * *
1123190 TAAGTCCTTTGGGCCATCTATAAGACCTTCAGGCAGGATGTTTTCACATGTTCGTGAAAATA-GA
65 TAAGTCCTTCGAGCCATCTATAAGACCTTCAGGCAGGATGTTTTCACATGTTTGTGAAAAAATGA
* *
1123254 CAAAAACAATTTTCAAAATTTCTCATATTAATGTTTTCAGAAGATGTAATTTTTGAAAAGTAAGA
130 GAAAAACAATTTTCAAAATTTCTCATTTTAATGTTTTCAGAAGATGTAATTTTTGAAAAGTAAGA
* *
1123319 AAACGATTTACAAAGTTTCTTACCTAGTAAACTATTTCCAAAATT
195 AAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATT
* * * * * * * * *
1123364 AGTAAGTCCTTCGGGCCAT--C-AGTAAGTCTTTCGAG-CATGATGATTAAATCATTCGGGTC--
1 AGTAAGTCTTTCGAG-CATGACGATTAAATCCTTCG-GTCAT-ATG--TCAGTCTTTCGAG-CAA
* * * * * ** * *
1123423 -ATCTATCAGTCTTTCGAGCAAGATGT-TAATTCCTTCAGGCATGATGTTTTCACATGTTTATG-
60 GATGT-TAAGTCCTTCGAGC--CATCTATAAGACCTTCAGGCAGGATGTTTTCACATGTTTGTGA
* ** *
1123485 AAAAATGAGAAAAA-AA-TTTCAAAATTTTTCATTTTAATGTTTTCAGAAGATGATGTTTTTTTA
122 AAAAATGAGAAAAACAATTTTCAAAATTTCTCATTTTAATGTTTTCAGAAGATG-TAATTTTTGA
1123548 AAAGT----AAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTTGT
186 AAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAA--T-T
* * * *
1123601 AAGTCCTTTGGGCCATCAGTAAGCCTTTTGAGCATGATGATTAAATCGTTTGGGTCATATGTCAG
1 -AG-----T-----A--AGT----CTTTCGAGCATGACGATTAAATC-CTTCGGTCATATGTCAG
* * * *
1123666 TCTTTCAAGCAAGATGTTAAGTCCTTCGGGCCATCTATAAGACCTTCGGGTAGGATGTTTTCACA
48 TCTTTCGAGCAAGATGTTAAGTCCTTCGAGCCATCTATAAGACCTTCAGGCAGGATGTTTTCACA
* *
1123731 TGTTTGT-AAAAAATGAGAAAAACAATTTTCAAAATTTCTCATTTTAATGTTTTCAGATGATGAA
113 TGTTTGTGAAAAAATGAGAAAAACAATTTTCAAAATTTCTCATTTTAATGTTTTCAGAAGATGTA
* *
1123795 ACTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAACTATTTCCAAAATT
178 ATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATT
*
1123857 GGTAAGTC
1 AGTAAGTC
1123865 CTTTGTGCCA
Statistics
Matches: 602, Mismatches: 89, Indels: 99
0.76 0.11 0.13
Matches are distributed among these distances:
234 41 0.07
236 5 0.01
237 50 0.08
238 31 0.05
239 162 0.27
240 118 0.20
243 4 0.01
245 1 0.00
248 1 0.00
250 4 0.01
253 7 0.01
254 56 0.09
255 24 0.04
256 48 0.08
257 8 0.01
259 42 0.07
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.36
Consensus pattern (239 bp):
AGTAAGTCTTTCGAGCATGACGATTAAATCCTTCGGTCATATGTCAGTCTTTCGAGCAAGATGTT
AAGTCCTTCGAGCCATCTATAAGACCTTCAGGCAGGATGTTTTCACATGTTTGTGAAAAAATGAG
AAAAACAATTTTCAAAATTTCTCATTTTAATGTTTTCAGAAGATGTAATTTTTGAAAAGTAAGAA
AGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATT
Found at i:1123420 original size:42 final size:41
Alignment explanation
Indices: 1123373--1123451 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 41
1123363 TAGTAAGTCC
*
1123373 TTCGGGCCATC-AGTAAGTCTTTCGAGCATGATGATTAAATCA
1 TTCGGGCCATCTA-TAAGTCTTTCGAGCAAGATG-TTAAATCA
* *
1123415 TTCGGGTCATCTATCAGTCTTTCGAGCAAGATGTTAA
1 TTCGGGCCATCTATAAGTCTTTCGAGCAAGATGTTAA
1123452 TTCCTTCAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 4 0.12
42 28 0.85
43 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (41 bp):
TTCGGGCCATCTATAAGTCTTTCGAGCAAGATGTTAAATCA
Found at i:1123911 original size:42 final size:42
Alignment explanation
Indices: 1123863--1123942 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
1123853 AATTGGTAAG
* *
1123863 TCCTTTGTGCCATT-AGTAAGTCTTTCGAGCATGATGATTAAA
1 TCCTTTGAGCC-TTCAGTAAGTCTTTCGAGCAAGATGATTAAA
* * *
1123905 TCCTTTGAGTCTTCTGTCAGTCTTTCGAGCAAGATGAT
1 TCCTTTGAGCCTTCAGTAAGTCTTTCGAGCAAGATGAT
1123943 AAGTCCTCCG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 2 0.06
42 30 0.94
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.39
Consensus pattern (42 bp):
TCCTTTGAGCCTTCAGTAAGTCTTTCGAGCAAGATGATTAAA
Found at i:1123925 original size:259 final size:254
Alignment explanation
Indices: 1123465--1123974 Score: 761
Period size: 259 Copynumber: 2.0 Consensus size: 254
1123455 CTTCAGGCAT
* *
1123465 GATGTTTTCACATGTTTATGAAAAATGAGAAAAAAATTTCAAAATTTTTCATTTTAATGTTTTCA
1 GATGTTTTCACATGTTTATAAAAAATGAGAAAAAAATTTCAAAATTTCTCATTTTAATGTTTTCA
*** *
1123530 GAAGATGATGTTTTTTTAAAAGTAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAA
66 GAAGATGATAACTTTTGAAAAGTAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAA
* * * *
1123595 ATTTGTAAGTCCTTTGGGCCATCAGTAAGCCTTTTGAGCATGATGATTAAATCGTTTGGGTCATA
131 ATTGGTAAGTCCTTTGGGCCATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTTGAGTCATA
* *
1123660 TGTCAGTCTTTCAAGCAAGATGTTAAGTCCTTCGGGCCATCTATAAGACCTTCGGGTAG
196 TGTCAGTCTTTCAAGCAAGATGATAAGTCCTCCGGGCCATCTATAAGACCTTCGGGTAG
*
1123719 GATGTTTTCACATGTTTGTAAAAAATGAGAAAAACAATTTTCAAAATTTCTCATTTTAATGTTTT
1 GATGTTTTCACATGTTTATAAAAAATGAGAAAAA-AA-TTTCAAAATTTCTCATTTTAATGTTTT
* *
1123784 CAGATGATGA-AACTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACTTAGTAAACTATT
64 CAGAAGATGATAACTTTTGAAAAGT----AAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATT
* * *
1123848 TCCAAAATTGGTAAGTCCTTTGTGCCATTAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGA
125 TCCAAAATTGGTAAGTCCTTTGGGCCATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTTGA
* * * *
1123913 GTCTTCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTCCGTGCCATCTATAAGACCTTCGGG
190 GTCATATGTCAGTCTTTCAAGCAAGATGATAAGTCCTCCGGGCCATCTATAAGACCTTCGGG
1123975 CCATCTATAA
Statistics
Matches: 228, Mismatches: 22, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
254 32 0.14
255 12 0.05
256 35 0.15
259 149 0.65
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.36
Consensus pattern (254 bp):
GATGTTTTCACATGTTTATAAAAAATGAGAAAAAAATTTCAAAATTTCTCATTTTAATGTTTTCA
GAAGATGATAACTTTTGAAAAGTAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAA
ATTGGTAAGTCCTTTGGGCCATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTTGAGTCATA
TGTCAGTCTTTCAAGCAAGATGATAAGTCCTCCGGGCCATCTATAAGACCTTCGGGTAG
Found at i:1123977 original size:20 final size:20
Alignment explanation
Indices: 1123954--1124015 Score: 106
Period size: 20 Copynumber: 3.1 Consensus size: 20
1123944 AGTCCTCCGT
1123954 GCCATCTATAAGACCTTCGG
1 GCCATCTATAAGACCTTCGG
1123974 GCCATCTATAAGACCTTCGG
1 GCCATCTATAAGACCTTCGG
* *
1123994 GCCATCTATAAAACTTTCGG
1 GCCATCTATAAGACCTTCGG
1124014 GC
1 GC
1124016 AAGATGTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (20 bp):
GCCATCTATAAGACCTTCGG
Found at i:1128861 original size:6 final size:6
Alignment explanation
Indices: 1128850--1128875 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1128840 AACTCAGGTT
1128850 CTGTTC CTGTTC CTGTTC CTGTTC CT
1 CTGTTC CTGTTC CTGTTC CTGTTC CT
1128876 AACAGTCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.35, G:0.15, T:0.50
Consensus pattern (6 bp):
CTGTTC
Found at i:1130576 original size:58 final size:58
Alignment explanation
Indices: 1130511--1130645 Score: 141
Period size: 58 Copynumber: 2.3 Consensus size: 58
1130501 TTTTTAAAAA
* * *
1130511 ATTAAAA-TATACAAATAATCTCATGACTATAGAA-TGTTGTTTTATTAAATCT-TCAATT
1 ATTAAAAGTATA-AAATAATCCCATGA-TATA-AAGTGTTGTTTTATTAAATCTCACAACT
** *
1130569 ATTAAAATGTATAAAATGGTCCCATGATATAAAGTGTTGTTTTATTGAATCTCACAACT
1 ATTAAAA-GTATAAAATAATCCCATGATATAAAGTGTTGTTTTATTAAATCTCACAACT
1130628 ATTAAAAGTTATGAAAAT
1 ATTAAAAG-TAT-AAAAT
1130646 GAACATTCGA
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
57 2 0.03
58 29 0.45
59 25 0.38
60 9 0.14
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (58 bp):
ATTAAAAGTATAAAATAATCCCATGATATAAAGTGTTGTTTTATTAAATCTCACAACT
Found at i:1131026 original size:28 final size:29
Alignment explanation
Indices: 1130979--1131034 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
1130969 GATCGTTGCT
1130979 TTCAAGCATTGATTCAACGAC-ATAATGG
1 TTCAAGCATTGATTCAACGACAATAATGG
*
1131007 TTCAAGCATTGACTT-GACGACAATAATG
1 TTCAAGCATTGA-TTCAACGACAATAATG
1131035 TAAAGGGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (29 bp):
TTCAAGCATTGATTCAACGACAATAATGG
Found at i:1131814 original size:50 final size:50
Alignment explanation
Indices: 1131750--1131844 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
1131740 CAAATGCTAA
*
1131750 TTAAAATTATAAAATATATTTCTGATGTTA-CTTTTTGAAAGAATAGCAT
1 TTAAAACTATAAAATATATTTCTGATGTTATCTTTTTGAAAGAATAGCAT
* *
1131799 TTAAAACTATAAAAATATATTTGTGATGTTATTTTTTTGAAAGAAT
1 TTAAAACTAT-AAAATATATTTCTGATGTTATCTTTTTGAAAGAAT
1131845 GGATTTTGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
49 9 0.22
50 19 0.46
51 13 0.32
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.44
Consensus pattern (50 bp):
TTAAAACTATAAAATATATTTCTGATGTTATCTTTTTGAAAGAATAGCAT
Found at i:1141946 original size:16 final size:16
Alignment explanation
Indices: 1141925--1141955 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1141915 TAATATTAAA
1141925 ACTTGAACTCAAAAAG
1 ACTTGAACTCAAAAAG
1141941 ACTTGAACTCAAAAA
1 ACTTGAACTCAAAAA
1141956 AAAATTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (16 bp):
ACTTGAACTCAAAAAG
Found at i:1143398 original size:182 final size:181
Alignment explanation
Indices: 1143105--1143754 Score: 874
Period size: 182 Copynumber: 3.6 Consensus size: 181
1143095 CGATACAAAT
* * * *
1143105 TAAAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGATAAAACCGGTGTC-ATTATGA
1 TAAAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGA-AATGA
** * * *
1143169 TAAAACCGGTAAAGCGCTATCGGATATATTGAAAGTGTCGATAAATTAATATAAGTGTCGACACT
65 TAAAACCGGTAAAAAGCTACCAGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACT
*
1143234 TTTGTAATTTAAAAGAGAATAAGTTATAGCGCCTAAAAGGTGTCGATACTTTA
130 TTTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAA-GTGTCGATACTTTA
* *
1143287 TAAAAATGTGTCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCTCGAAATGAT
1 TAAAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGAT
* * *
1143352 AAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCAACGCTT
66 AAAACCGGTAAAAAGCTACCAGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTT
1143417 TTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTGAAAAGTGTCGATACTTTA
131 TTGTAATTTAAAAGAGAAGAAGTTATAGCGCCT-AAAAGTGTCGATACTTTA
* * * * * * *
1143469 TACAAATGTATCGATCCATAGTAATATATCCGGTAATAATATGACAAAAGAGGTCTCAAAATGAT
1 TAAAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGAT
* *
1143534 AAAACCGGTAAAAAGATATCAGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTT
66 AAAACCGGTAAAAAGCTACCAGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTT
* * *
1143599 TCGTAATTTAAAAGAGAAGAAATTATAGCGCCTAAAAAATGTCGATACTTTA
131 TTGTAATTTAAAAGAGAAGAAGTTATAGCGCCT-AAAAGTGTCGATACTTTA
* ** * * * *
1143651 -AGAAAATGTATAGATCCATAATAATATAATAGGTAAAAATATGATAAAACCGGTATCGAAATGA
1 TA-AAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGA
* * * * *
1143715 CAAAACTGGTAAAGCA-CTACCAGTTATGTTGAAAGTGTCG
65 TAAAACCGGTAAA-AAGCTACCAGATATATTGAAAGTGTCG
1143755 GTACTTTAAT
Statistics
Matches: 416, Mismatches: 48, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
181 1 0.00
182 409 0.98
183 6 0.01
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (181 bp):
TAAAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGAT
AAAACCGGTAAAAAGCTACCAGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTT
TTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAGTGTCGATACTTTA
Found at i:1145667 original size:201 final size:199
Alignment explanation
Indices: 1145241--1146249 Score: 1158
Period size: 201 Copynumber: 5.0 Consensus size: 199
1145231 AAAGGCAAAA
* **
1145241 GTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCAC-AAATAAGTGTCGACACATTTATATCAA
1 GTGTCCATAATGT-TTTTCCAAAC----CAAGTTCACGAAA-AAGTGTCGATACATTTATAAAAA
*
1145305 GTGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCG
60 GTGTCGATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCG
* * *
1145370 GTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAATATGTGTCGACACTTTATTCATTTGT
125 GTTTAAATTTACCGGTTTTATGAGAAAATAGGTATACAA-ATGTATCGACACTTTATACATTTGT
*
1145435 GTCGATAC-AT
189 GTCGATACTTT
* * * *
1145445 GTTGTCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTAT
1 G-TGTCCATAATGTTTTTCCAAACCAAGTTCACGAA-AAAGTGTCGATACATTTATAAAAAGTGT
* * * ** * *
1145510 CGATCCCAAAAACATCGAAATCCGTAATTATAATATAATAGGTAAAATAACAATGTAACCGGTCT
64 CGATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTT
* * * * * * **
1145575 AAATATACCAG-TTTATGAGAAAAGAGGTATTCATAAAGTATCGACACTTTATAAATTTGTACCG
129 AAATTTACCGGTTTTATGAGAAAATAGGTATACA-AATGTATCGACACTTTATACATTTGTGTCG
1145639 ATACTTT
193 ATACTTT
* **
1145646 GTGTCCATAATGTGTTTTCCAAACAAAACAAGTTCAC-AAATAAGTGTCGACACATTTATATCAA
1 GTGTCCATAATGT-TTTTCCAAAC----CAAGTTCACGAAA-AAGTGTCGATACATTTATAAAAA
*
1145710 GTGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCG
60 GTGTCGATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCG
* *
1145775 GTTTAAATTTACCGGTTTTATGAGAAAATAGGTCA-ACAATATGTGTCGACACTTTATTCATTTG
125 GTTTAAATTTACCGGTTTTATGAGAAAATAGGT-ATACAA-ATGTATCGACACTTTATACATTTG
1145839 TGTCGATACATGTT
188 TGTCGATAC-T-TT
* * * *
1145853 -T-TCCAGAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTATAAAAAGTGAC
1 GTGTCCATAATGTTTTTCCAAACCAAGTTCACGAA-AAAGTGTCGATACATTTATAAAAAGTGTC
* * * * * * * * *
1145916 GATCCTACAAACATCGAAACACATAATTATAATGTAATCGGTAACATAACAATGTAACCGGTCTA
65 GATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTA
* * * *
1145981 AATATACTGGTTATT-T-A-AAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCG
130 AATTTACCGGTT-TTATGAGAAAATAGGTATACA-AATGTATCGACACTTTATACATTTGTGTCG
*
1146043 ACACTTT
193 ATACTTT
* ** * *
1146050 ATGTCCATAATAAATTTTCCAAA-CAAGTTCAAGAAAAAGTGTCGATACATTTAGAAAAAGTGTC
1 GTGTCCATAAT-GTTTTTCCAAACCAAGTTCACGAAAAAGTGTCGATACATTTATAAAAAGTGTC
* *
1146114 GATCCTAAAAACATCGAAACCCATAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTA
65 GATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTA
* * * *
1146179 AATTTACCGGCTTTATGAGAAAATAGGTATACAGAATGTATCGACACTTTTTAAATTAGTGTCGA
130 AATTTACCGGTTTTATGAGAAAATAGGTATACA-AATGTATCGACACTTTATACATTTGTGTCGA
1146244 TACTTT
194 TACTTT
1146250 TGAAAATTAC
Statistics
Matches: 677, Mismatches: 101, Indels: 58
0.81 0.12 0.07
Matches are distributed among these distances:
197 4 0.01
198 98 0.14
199 58 0.09
200 128 0.19
201 195 0.29
202 4 0.01
203 1 0.00
204 111 0.16
205 73 0.11
206 3 0.00
207 2 0.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.31
Consensus pattern (199 bp):
GTGTCCATAATGTTTTTCCAAACCAAGTTCACGAAAAAGTGTCGATACATTTATAAAAAGTGTCG
ATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAA
ATTTACCGGTTTTATGAGAAAATAGGTATACAAATGTATCGACACTTTATACATTTGTGTCGATA
CTTT
Found at i:1146032 original size:22 final size:21
Alignment explanation
Indices: 1146006--1146051 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1145996 TAAAAAAAGG
*
1146006 TATACATAATGTATCGATACTT
1 TATACAT-ATGTATCGACACTT
* *
1146028 TATACATTTGTGTCGACACTT
1 TATACATATGTATCGACACTT
1146049 TAT
1 TAT
1146052 GTCCATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (21 bp):
TATACATATGTATCGACACTT
Found at i:1149433 original size:106 final size:107
Alignment explanation
Indices: 1149312--1149504 Score: 271
Period size: 106 Copynumber: 1.8 Consensus size: 107
1149302 ATGACAAATG
* * * *
1149312 ATATAATGTAATAGGTAAATTGACAATGTAACCAGTACACATATACC-GTTTAATTATAAAACAG
1 ATATAATGTAATAGGTAAATTGACAATGTAACCAGTACAAATATACCGGGTTAATGAGAAAACAG
*
1149376 GTTAACATAAAGTATCGACACTATTAGATTTTGTTTCGATAA
66 GTCAACATAAAGTATCGACACTATTAGATTTTGTTTCGATAA
** * * * * *
1149418 ATATAATGTAATAGGTAAATTTCCAATGTAACCGGTAGAAATATACCGGGTTCATGAGAGAATAG
1 ATATAATGTAATAGGTAAATTGACAATGTAACCAGTACAAATATACCGGGTTAATGAGAAAACAG
1149483 GTCAACATAAAGTATCGACACT
66 GTCAACATAAAGTATCGACACT
1149505 TTGTTTAATT
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
106 42 0.57
107 32 0.43
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (107 bp):
ATATAATGTAATAGGTAAATTGACAATGTAACCAGTACAAATATACCGGGTTAATGAGAAAACAG
GTCAACATAAAGTATCGACACTATTAGATTTTGTTTCGATAA
Found at i:1149879 original size:198 final size:197
Alignment explanation
Indices: 1149412--1149888 Score: 541
Period size: 197 Copynumber: 2.4 Consensus size: 197
1149402 GATTTTGTTT
* * *
1149412 CGATAAATATAATGTAATAGGTAAATTTCCAATGTAACCGG-TAGAAATATACCGGGTTCATGAG
1 CGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTTA-AAATATACC-GGTTAATGAG
* * * *
1149476 AGAATAGGTCAACATAAAGTATCGACACTTTGTTTAATTTGTGTCGATACATTTTTCAAAATGAA
64 AAAATAGGTCAACATAAAGTATCGACACTCTGTTAAATATGTGTCGATACATTTTTCAAAATGAA
* * * **
1149541 TGGCAAACGAGGTGTACGCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCTCGAAACATC
129 AGACAAACGAGGTGCACGCATAAAGTGTCGATACA-TTTTAAAAAGTATCGATCCTAAAAACATC
*
1149606 AAAAT
193 AAAAC
* * * *
1149611 CGATAATTATTATGTAACAGGTAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATTAGCA
1 CGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATGAGAA
* * * * *
1149676 AATAGGTCTACATTATGTATCGACACTCT-TTAAATATGTGTTGATACTTTTTTCCAAAAT-AAA
66 AATAGGTCAACATAAAGTATCGACACTCTGTTAAATATGTGTCGATACATTTTT-CAAAATGAAA
*
1149739 GCACAAACGAGTTGCACGCATAAAGTGTCGATACA-TTTAAAATTA-TATCGATCCTAAAAACAT
130 G-ACAAACGAGGTGCACGCATAAAGTGTCGATACATTTTAAAA--AGTATCGATCCTAAAAACAT
*
1149802 CGAAAC
192 CAAAAC
* * * * * * * *
1149808 CGATATTTATAATGTAATAGGTCAATTTATAATGTAATCGGTTTAAATTTACCGTTTTTATGAGA
1 CGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTTAAAATATACCG-GTTAATGAGA
* *
1149873 AAATAGGCCAATATAA
65 AAATAGGTCAACATAA
1149889 GCGCTACCTA
Statistics
Matches: 232, Mismatches: 40, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
196 7 0.03
197 89 0.38
198 88 0.38
199 46 0.20
200 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (197 bp):
CGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATGAGAA
AATAGGTCAACATAAAGTATCGACACTCTGTTAAATATGTGTCGATACATTTTTCAAAATGAAAG
ACAAACGAGGTGCACGCATAAAGTGTCGATACATTTTAAAAAGTATCGATCCTAAAAACATCAAA
AC
Found at i:1149960 original size:23 final size:23
Alignment explanation
Indices: 1149934--1149985 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
1149924 TCCGGTTAAA
**
1149934 TACCTATTTTATTATATAAGCGC
1 TACCTATTACATTATATAAGCGC
*
1149957 TACCTATTACATTATCTAAGCGC
1 TACCTATTACATTATATAAGCGC
1149980 TACCTA
1 TACCTA
1149986 ATATGTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAGCGC
Found at i:1152056 original size:16 final size:15
Alignment explanation
Indices: 1152029--1152062 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
1152019 TAGTCCCCTG
*
1152029 AATTTTAATATTTTT
1 AATTTTAATATTATT
1152044 AATTTTAAATATTATT
1 AATTTT-AATATTATT
1152060 AAT
1 AAT
1152063 GGTTTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTTTAATATTATT
Found at i:1152520 original size:17 final size:16
Alignment explanation
Indices: 1152491--1152532 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
1152481 AACGCATATC
1152491 AATT-TTTTATCTTTTAA
1 AATTATTTTATC--TTAA
1152508 AATTATTTT-TCTTAA
1 AATTATTTTATCTTAA
1152523 AATTATTTTA
1 AATTATTTTA
1152533 AAATGTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTATTTTATCTTAA
Found at i:1163453 original size:20 final size:21
Alignment explanation
Indices: 1163429--1163489 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 21
1163419 TTCCAAAAAT
*
1163429 TGTAAATCCTTCGGGTCATTA
1 TGTAAATCCTTCGGGTCATGA
* * *
1163450 -GTAAGTCTTTCGAG-CATGA
1 TGTAAATCCTTCGGGTCATGA
1163469 TGCATAAATCCTTCGGGTCAT
1 TG--TAAATCCTTCGGGTCAT
1163490 CTGTAAGTCT
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
19 4 0.14
20 12 0.41
22 10 0.34
23 3 0.10
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (21 bp):
TGTAAATCCTTCGGGTCATGA
Found at i:1163478 original size:42 final size:41
Alignment explanation
Indices: 1163431--1163531 Score: 150
Period size: 42 Copynumber: 2.4 Consensus size: 41
1163421 CCAAAAATTG
*
1163431 TAAATCCTTCGGGTCAT-TAGTAAGTCTTTCGAGCATGATGCA
1 TAAATCCTTCGGGTCATCT-GTAAGTCTTTCGAGCAAGATG-A
1163473 TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGA
1 TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGA
* *
1163514 TAAGTCCTTCGGGCCATC
1 TAAATCCTTCGGGTCATC
1163532 CATAAGATCT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
41 17 0.31
42 37 0.67
43 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (41 bp):
TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGA
Found at i:1163515 original size:250 final size:253
Alignment explanation
Indices: 1163061--1163726 Score: 941
Period size: 261 Copynumber: 2.6 Consensus size: 253
1163051 GTCGAGTTTT
*
1163061 TGAAGAATGAGAAAGCTATTACCCAAAGTTTCTCATTTAATGTTTACAGAAAATGAAATTCTTGA
1 TGAA-AATGAGAAAGCGATTA-CCAAAGTTTCTCATTTAATGTTTACAGAAAATGAAATTCTTGA
1163126 AAAGTAAGAAAGATATTACCAAAGTTTATTA-CCAGTAAATTATTTCCAAAATTTGTAAGTCCTT
64 AAAGTAAGAAA-ATATTACCAAAGTTTATTACCCAGTAAATTATTTCCAAAATTTGTAAGTCCTT
* * * * * *
1163190 AGGGCCATCAATAAGTCTTTCAAGCATGATTATTAAATCCTCCGGGTCATCTGTAAGTTTTTTGA
128 CGGGCCATCAGTAAGTCTTTCGAGCATGATCATTAAATCCTCCGGGTCATCTGTAAGTCTTTCGA
*
1163255 GCAGGATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGGTA-G-G-ATG-TTTTCACA
193 GCAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGGTAGGAGTATGATTTTCACA
* *
1163312 TGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGTTTTCAGAAAATGAAATTTTTGAAA
1 TGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGTTTACAGAAAATGAAATTCTTGAAA
* * * *
1163377 AGTAAGAAAATGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAAATTGTAAATCCTTCG
66 AGTAAGAAAAT-ATTACCAAAGTTTATTACCCAGTAAATTATTTCCAAAATTTGTAAGTCCTTCG
* * *
1163442 GGTCATTAGTAAGTCTTTCGAGCATGATGCA-TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAG
130 GGCCATCAGTAAGTCTTTCGAGCATGAT-CATTAAATCCTCCGGGTCATCTGTAAGTCTTTCGAG
* *
1163506 CAAGATGATAAGTCCTTCGGGCCATCCATAAGATCTTCGGGTAGGATGTTTTCACATGATTTTCA
194 CAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGGTAGGA-G---T---ATGATTTTCA
1163571 CA
252 CA
* *
1163573 TGAAAATGAGAAAGCGATTATCAAAGTTTCTTATTTAATGTTTACAGAAAATGAAATTCTTGAAA
1 TGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGTTTACAGAAAATGAAATTCTTGAAA
* *
1163638 AGTAA-AAAAGTTATTACCAAAGTTTTTTACCTAGTAAATTATTTCCAAAATTTGTAAGTCCTTC
66 AGTAAGAAAA--TATTACCAAAGTTTATTACCCAGTAAATTATTTCCAAAATTTGTAAGTCCTTC
*
1163702 GAGCCATCAGTAAGTCTTTCGAGCA
129 GGGCCATCAGTAAGTCTTTCGAGCA
1163727 AGATTTCATT
Statistics
Matches: 368, Mismatches: 31, Indels: 22
0.87 0.07 0.05
Matches are distributed among these distances:
248 2 0.01
249 67 0.18
250 141 0.38
251 6 0.02
253 1 0.00
260 7 0.02
261 143 0.39
262 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (253 bp):
TGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGTTTACAGAAAATGAAATTCTTGAAA
AGTAAGAAAATATTACCAAAGTTTATTACCCAGTAAATTATTTCCAAAATTTGTAAGTCCTTCGG
GCCATCAGTAAGTCTTTCGAGCATGATCATTAAATCCTCCGGGTCATCTGTAAGTCTTTCGAGCA
AGATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGGTAGGAGTATGATTTTCACA
Found at i:1163682 original size:261 final size:249
Alignment explanation
Indices: 1163061--1163726 Score: 931
Period size: 250 Copynumber: 2.6 Consensus size: 249
1163051 GTCGAGTTTT
*
1163061 TGAAGAATGAGAAAGCTATTACCCAAAGTTTCTCATTTAATGTTTACAGAAAATGAAATTCTTGA
1 TGAA-AATGAGAAAGCGATTA-CCAAAGTTTCTCATTTAATGTTTACAGAAAATGAAATTCTTGA
* * *
1163126 AAAGTAAGAAAGATATTACCAAAGTTTATTACCAGTAAATTATTTCCAAAATTTGTAAGTCCTTA
64 AAAGTAAAAAAGTTATTACCAAAGTTTATTACCAGTAAATTATTTCCAAAATTTGTAAGTCCTTC
* * * * *
1163191 GGGCCATCAATAAGTCTTTCAAGCATGATTATTAAATCCTCCGGGTCATCTGTAAGTTTTTTGAG
129 GGGCCATCAGTAAGTCTTTCGAGCATGATCATTAAATCCTCCGGGTCATCTGTAAGTCTTTCGAG
*
1163256 CAGGATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACA
194 CAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACA
* *
1163312 TGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGTTTTCAGAAAATGAAATTTTTGAAA
1 TGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGTTTACAGAAAATGAAATTCTTGAAA
* * * * *
1163377 AGTAAGAAAA-TGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAAATTGTAAATCCTTC
66 AGTAA-AAAAGTTATTACCAAAGTTTATTA-CCAGTAAATTATTTCCAAAATTTGTAAGTCCTTC
* * *
1163441 GGGTCATTAGTAAGTCTTTCGAGCATGATGCA-TAAATCCTTCGGGTCATCTGTAAGTCTTTCGA
129 GGGCCATCAGTAAGTCTTTCGAGCATGAT-CATTAAATCCTCCGGGTCATCTGTAAGTCTTTCGA
* *
1163505 GCAAGATGATAAGTCCTTCGGGCCATCCATAAGATCTTCGGGTAGGATGTTTTCACATGATTTTC
193 GCAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGGTA-G--G-------ATG-TTTTC
1163570 ACA
247 ACA
* *
1163573 TGAAAATGAGAAAGCGATTATCAAAGTTTCTTATTTAATGTTTACAGAAAATGAAATTCTTGAAA
1 TGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGTTTACAGAAAATGAAATTCTTGAAA
*
1163638 AGTAAAAAAGTTATTACCAAAGTTTTTTACCTAGTAAATTATTTCCAAAATTTGTAAGTCCTTCG
66 AGTAAAAAAGTTATTACCAAAGTTTATTACC-AGTAAATTATTTCCAAAATTTGTAAGTCCTTCG
*
1163703 AGCCATCAGTAAGTCTTTCGAGCA
130 GGCCATCAGTAAGTCTTTCGAGCA
1163727 AGATTTCATT
Statistics
Matches: 365, Mismatches: 34, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
249 63 0.17
250 144 0.39
251 6 0.02
253 1 0.00
260 9 0.02
261 142 0.39
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (249 bp):
TGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGTTTACAGAAAATGAAATTCTTGAAA
AGTAAAAAAGTTATTACCAAAGTTTATTACCAGTAAATTATTTCCAAAATTTGTAAGTCCTTCGG
GCCATCAGTAAGTCTTTCGAGCATGATCATTAAATCCTCCGGGTCATCTGTAAGTCTTTCGAGCA
AGATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACA
Found at i:1163849 original size:42 final size:41
Alignment explanation
Indices: 1163787--1163867 Score: 117
Period size: 42 Copynumber: 2.0 Consensus size: 41
1163777 TCATTTTCAA
* * *
1163787 TAAGTCTTTCGAGCATGATGATTAAATTCTTCGGGTCATCTG
1 TAAGTCTTTCGAGCAGGATGA-TAAATCCTTCGGGCCATCTG
*
1163829 TAAGTCTTTCGAGCAGGATGATAAGTCCTTCGGGCCATC
1 TAAGTCTTTCGAGCAGGATGATAAATCCTTCGGGCCATC
1163868 CTTAAGACCT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 15 0.43
42 20 0.57
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (41 bp):
TAAGTCTTTCGAGCAGGATGATAAATCCTTCGGGCCATCTG
Found at i:1164278 original size:260 final size:249
Alignment explanation
Indices: 1163787--1164406 Score: 857
Period size: 260 Copynumber: 2.4 Consensus size: 249
1163777 TCATTTTCAA
* *
1163787 TAAGTCTTTCGAGCATGATGATTAAATTCTTCGGGTCATCTGTAAGTCTTTCGAGCAGGATGATA
1 TAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAG-AAGATGATA
* * *
1163852 AGTCCTTCGGGCCATCCTTAAGACCTTCGGGTAGGATGTTTTCACATGATAATAAGAAAGTGATT
65 AGTCTTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACATGATAATAAGAAAATGATT
1163917 ACCAAAGTTTCTCATTTAATGTTTTTAGAAAATGAAATTTTTGAAAAGTAAGAAAACATTTTCCA
130 ACCAAAGTTTCTCATTTAATGTTTTTAGAAAATGAAATTTTTGAAAAGTAAGAAAACATTTTCCA
* *
1163982 AAGTTTCTTACACAGTAAATTATTTCCAAAATTTGTAAATCCTTCAAGTCATCAG
195 AAGTTTCTTACACAGTAAATTATCTCCAAAATTTGTAAATCATTCAAGTCATCAG
* *
1164037 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGTTAGATGATA
1 TAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAG-AAGATGATA
* *
1164102 AGTCTTTCGGGCCATCCATAAGATCTTCGGGTATGATGTTTTCACATGATTTTCACATGAAAATG
65 AGTCTTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACATGA---T-A-AT---AA-G
* * *
1164167 AAAATCGATTACCAAAGTTTCTCATTTCATGTTTTTAGAAAATGAAATTTTTTAATAGTAAGAAA
121 AAAAT-GATTACCAAAGTTTCTCATTTAATGTTTTTAGAAAATGAAATTTTTGAAAAGTAAGAAA
** * * **
1164232 GTGA-TTTCCAAAGTTTCTTACCCAGTAAATTATCTCCAAAATTTGTAAGTCATTCGGGTCATCA
185 -ACATTTTCCAAAGTTTCTTACACAGTAAATTATCTCCAAAATTTGTAAATCATTCAAGTCATCA
1164296 G
249 G
* * *
1164297 TAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTTATTTGTCAGTCTTTCGAGCAAGATGATA
1 TAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAG-AAGATGATA
** *
1164362 AGTTCTTT-GGGCCATCTGTAAGACCTTCAGGTAGGATGTTTTCAC
65 AG-TCTTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCAC
1164407 TATTTGTTAT
Statistics
Matches: 326, Mismatches: 32, Indels: 14
0.88 0.09 0.04
Matches are distributed among these distances:
250 105 0.32
253 1 0.00
254 1 0.00
255 2 0.01
258 2 0.01
259 5 0.02
260 204 0.63
261 6 0.02
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (249 bp):
TAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGAAGATGATAA
GTCTTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACATGATAATAAGAAAATGATTA
CCAAAGTTTCTCATTTAATGTTTTTAGAAAATGAAATTTTTGAAAAGTAAGAAAACATTTTCCAA
AGTTTCTTACACAGTAAATTATCTCCAAAATTTGTAAATCATTCAAGTCATCAG
Found at i:1164502 original size:38 final size:40
Alignment explanation
Indices: 1164403--1164495 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
1164393 TAGGATGTTT
1164403 TCACTATTTGTTATTATTGACTTCCTTTTGAAGAAAGAAG
1 TCACTATTTGTTATTATTGACTTCCTTTTGAAGAAAGAAG
*
1164443 TCAGTATTTGTTATTATTGACTT-CTTTGTG-A-AAAGAAG
1 TCACTATTTGTTATTATTGACTTCCTTT-TGAAGAAAGAAG
1164481 TCAACT-TTTGTTATT
1 TC-ACTATTTGTTATT
1164496 CCTGACTCCC
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
38 18 0.37
39 7 0.14
40 24 0.49
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (40 bp):
TCACTATTTGTTATTATTGACTTCCTTTTGAAGAAAGAAG
Done.