Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007746.1 Hibiscus syriacus cultivar Beakdansim tig00110009_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: 3674400
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 15
Found at i:1755085 original size:20 final size:22
Alignment explanation
Indices: 1755047--1755086 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
1755037 TTTGAGTATA
1755047 AAAATCATCCCCAAACGGCTCT
1 AAAATCATCCCCAAACGGCTCT
1755069 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
1755087 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCT
Found at i:1755347 original size:35 final size:32
Alignment explanation
Indices: 1755301--1755371 Score: 106
Period size: 35 Copynumber: 2.1 Consensus size: 32
1755291 TTTTGTAAAG
1755301 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAA-CTA
*
1755336 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
1755368 GGGA
1 GGGA
1755372 GTTTGTAAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
32 7 0.20
33 5 0.14
34 1 0.03
35 22 0.63
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:1756383 original size:3 final size:3
Alignment explanation
Indices: 1756362--1756399 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
1756352 TGAAGAAAGG
* *
1756362 GAA G-A GAA GAA AAA CAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1756400 TGAGGACGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:1758346 original size:21 final size:21
Alignment explanation
Indices: 1758321--1758399 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
1758311 TTCAAGATTG
1758321 CCCAGGGGGTACAGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
*
1758342 CCCAGGGGGTACAGA-T--AC
1 CCCAGGGGGTACAGATTCCCC
*
1758360 CCC---GGGTACAGATACCCC
1 CCCAGGGGGTACAGATTCCCC
*
1758378 CCCAGGGGGTACCGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
1758399 C
1 C
1758400 TGTCTAAAGC
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
15 9 0.19
18 8 0.17
20 1 0.02
21 29 0.62
ACGTcount: A:0.20, C:0.39, G:0.28, T:0.13
Consensus pattern (21 bp):
CCCAGGGGGTACAGATTCCCC
Found at i:1758367 original size:36 final size:36
Alignment explanation
Indices: 1758327--1758398 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
1758317 ATTGCCCAGG
*
1758327 GGGTACAGATTCCCCCCCAGGGGGTACAGATACCCC
1 GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
* *
1758363 GGGTACAGATACCCCCCCAGGGGGTACCGATTCCCC
1 GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
1758399 CTGTCTAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.21, C:0.38, G:0.28, T:0.14
Consensus pattern (36 bp):
GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
Found at i:1758368 original size:15 final size:15
Alignment explanation
Indices: 1758348--1758377 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1758338 CCCCCCCAGG
1758348 GGGTACAGATACCCC
1 GGGTACAGATACCCC
1758363 GGGTACAGATACCCC
1 GGGTACAGATACCCC
1758378 CCCAGGGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.27, T:0.13
Consensus pattern (15 bp):
GGGTACAGATACCCC
Found at i:1758466 original size:22 final size:21
Alignment explanation
Indices: 1758424--1758465 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1758414 AAACAGAATG
1758424 TCCAGGGGGTACCGATTCCCC
1 TCCAGGGGGTACCGATTCCCC
1758445 TCCAGGGGGTACCGATTCCCC
1 TCCAGGGGGTACCGATTCCCC
1758466 CCCTGTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.38, G:0.29, T:0.19
Consensus pattern (21 bp):
TCCAGGGGGTACCGATTCCCC
Found at i:1758530 original size:21 final size:21
Alignment explanation
Indices: 1758504--1758545 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1758494 ATTTGAATAT
1758504 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTATCGATTCCC
1758525 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTATCGATTCCC
1758546 CCCATTCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (21 bp):
TATGAAGGGGTATCGATTCCC
Found at i:1758612 original size:20 final size:22
Alignment explanation
Indices: 1758574--1758613 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
1758564 TTTGAGTATA
1758574 AAAATCATCCCCAAACGGCTCT
1 AAAATCATCCCCAAACGGCTCT
1758596 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
1758614 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCT
Found at i:1758867 original size:34 final size:32
Alignment explanation
Indices: 1758828--1758897 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
1758818 TTTTGTAAAG
*
1758828 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
1758862 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
1758894 GGGA
1 GGGA
1758898 GTTTGTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:1759462 original size:6 final size:6
Alignment explanation
Indices: 1759453--1759479 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1759443 GTCCGTCTCG
1759453 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1759480 AATACGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:1759620 original size:22 final size:22
Alignment explanation
Indices: 1759592--1759644 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
1759582 AATTTGGAAA
1759592 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
*
1759614 ATCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
1759636 ATCGCAACG
1 ATCGCAACG
1759645 CGAAATGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:1759691 original size:21 final size:21
Alignment explanation
Indices: 1759652--1759691 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1759642 ACGCGAAATG
** *
1759652 TCGCAACGCGATTTTCAACTA
1 TCGCAACGCGAAATGCAACTA
1759673 TCGCAACGCGAAATGCAAC
1 TCGCAACGCGAAATGCAAC
1759692 GCGAATTTGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (21 bp):
TCGCAACGCGAAATGCAACTA
Found at i:1759762 original size:19 final size:19
Alignment explanation
Indices: 1759709--1759766 Score: 89
Period size: 19 Copynumber: 3.1 Consensus size: 19
1759699 TGCGATAGTG
* * *
1759709 GAGATCGCAATGCGAATTA
1 GAGATCGCATTGCGATTTT
1759728 GAGATCGCATTGCGATTTT
1 GAGATCGCATTGCGATTTT
1759747 GAGATCGCATTGCGATTTT
1 GAGATCGCATTGCGATTTT
1759766 G
1 G
1759767 TTGGTCATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTT
Found at i:1780172 original size:26 final size:26
Alignment explanation
Indices: 1780126--1780178 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
1780116 TGGCCCAAGA
* *
1780126 ATATCACCAAGCCTAGGAATGATTGG
1 ATATCACCAAGCCTAGAAATGAATGG
*
1780152 ATATCATCAAG-CTATGAAATGAATGG
1 ATATCACCAAGCCTA-GAAATGAATGG
1780178 A
1 A
1780179 ATAAAACTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.25
Consensus pattern (26 bp):
ATATCACCAAGCCTAGAAATGAATGG
Found at i:1781342 original size:24 final size:24
Alignment explanation
Indices: 1781264--1781346 Score: 64
Period size: 24 Copynumber: 3.5 Consensus size: 24
1781254 ATTTCCGATT
* * * *
1781264 TGAATTTTGTTTTGACATCTGATA
1 TGAATTATGTTCTGATATCTTATA
* *
1781288 TGAAATCTGTTCTGAT-TCTTGACCTA
1 TGAATTATGTTCTGATATCTT-A--TA
1781314 -G-ATTATGTTCTGATATCTTATA
1 TGAATTATGTTCTGATATCTTATA
1781336 TGAATTATGTT
1 TGAATTATGTT
1781347 TTATTTTCTG
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
22 2 0.04
23 4 0.09
24 33 0.72
25 5 0.11
26 2 0.04
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.48
Consensus pattern (24 bp):
TGAATTATGTTCTGATATCTTATA
Found at i:1783334 original size:21 final size:21
Alignment explanation
Indices: 1783308--1783379 Score: 135
Period size: 21 Copynumber: 3.4 Consensus size: 21
1783298 CTCATAACAT
*
1783308 GGTGCATCGGTACACTATCAA
1 GGTGCATCGGTGCACTATCAA
1783329 GGTGCATCGGTGCACTATCAA
1 GGTGCATCGGTGCACTATCAA
1783350 GGTGCATCGGTGCACTATCAA
1 GGTGCATCGGTGCACTATCAA
1783371 GGTGCATCG
1 GGTGCATCG
1783380 ATACCCCTTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (21 bp):
GGTGCATCGGTGCACTATCAA
Found at i:1783471 original size:20 final size:21
Alignment explanation
Indices: 1783425--1783479 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
1783415 GCAGACTTGG
* *
1783425 TGCATGGATGCACAACAGGATA
1 TGCATCGATGCACAACA-GAGA
1783447 TGCATCGATGCACAACA-AGA
1 TGCATCGATGCACAACAGAGA
1783467 TGCATCGATGCAC
1 TGCATCGATGCAC
1783480 TAATTGCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 15 0.48
22 16 0.52
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (21 bp):
TGCATCGATGCACAACAGAGA
Found at i:1783552 original size:23 final size:21
Alignment explanation
Indices: 1783499--1783557 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 21
1783489 TCGAAATGGA
1783499 GTGCATGGATGCAC-TACATG
1 GTGCATGGATGCACTTACATG
*
1783519 GTGCATCGATGCACTAGTGACA-G
1 GTGCATGGATGCACT--T-ACATG
1783542 GTGCATGGATGCACTT
1 GTGCATGGATGCACTT
1783558 TGATCCCTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
20 13 0.39
21 1 0.03
23 16 0.48
24 3 0.09
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (21 bp):
GTGCATGGATGCACTTACATG
Found at i:1785560 original size:26 final size:26
Alignment explanation
Indices: 1785514--1785566 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
1785504 TGGCCCAAGA
* *
1785514 ATATCACCAAGCCTAGGAATGATTGG
1 ATATCACCAAGCCTAGAAATGAATGG
*
1785540 ATATCATCAAG-CTATGAAATGAATGG
1 ATATCACCAAGCCTA-GAAATGAATGG
1785566 A
1 A
1785567 ATAAAACTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.25
Consensus pattern (26 bp):
ATATCACCAAGCCTAGAAATGAATGG
Found at i:1786698 original size:24 final size:24
Alignment explanation
Indices: 1786671--1786716 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
1786661 GGTCTGACAT
*
1786671 CTGATATGAAATCTGTTCTGATTC
1 CTGACATGAAATCTGTTCTGATTC
* * *
1786695 CTGACCTGGATTCTGTTCTGAT
1 CTGACATGAAATCTGTTCTGAT
1786717 ATCTTATCTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (24 bp):
CTGACATGAAATCTGTTCTGATTC
Found at i:1788627 original size:107 final size:107
Alignment explanation
Indices: 1788496--1788688 Score: 368
Period size: 107 Copynumber: 1.8 Consensus size: 107
1788486 ATTTATAATT
*
1788496 TTTAAAAATTCAATGACAAATAAAATCATTTTAATAAATTTAATGATTATTTATAAATTTTATTA
1 TTTAAAAATTCAATGACAAATAAAATCATTTTAATAAATTTAATAATTATTTATAAATTTTATTA
1788561 TGCTTTTATATTAATAATGTATATCTACATAATTAATGATTA
66 TGCTTTTATATTAATAATGTATATCTACATAATTAATGATTA
*
1788603 TTTATAAATTCAATGACAAATAAAATCATTTTAATAAATTTAATAATTATTTATAAATTTTATTA
1 TTTAAAAATTCAATGACAAATAAAATCATTTTAATAAATTTAATAATTATTTATAAATTTTATTA
1788668 TGCTTTTATATTAATAATGTA
66 TGCTTTTATATTAATAATGTA
1788689 CATCAGTGTA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 84 1.00
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (107 bp):
TTTAAAAATTCAATGACAAATAAAATCATTTTAATAAATTTAATAATTATTTATAAATTTTATTA
TGCTTTTATATTAATAATGTATATCTACATAATTAATGATTA
Found at i:1789373 original size:19 final size:22
Alignment explanation
Indices: 1789335--1789374 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1789325 GAGTAACTGG
1789335 TCGACAAGTGAGTGAGTGGTTA
1 TCGACAAGTGAGTGAGTGGTTA
1789357 TCGACAA-TG-GTGA-TGGTT
1 TCGACAAGTGAGTGAGTGGTT
1789375 GACGAGTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 4 0.22
21 2 0.11
22 7 0.39
ACGTcount: A:0.25, C:0.10, G:0.35, T:0.30
Consensus pattern (22 bp):
TCGACAAGTGAGTGAGTGGTTA
Found at i:1789694 original size:2 final size:2
Alignment explanation
Indices: 1789687--1789910 Score: 127
Period size: 2 Copynumber: 120.0 Consensus size: 2
1789677 CTCCGGGATA
*
1789687 AT AT AT AT -T AT AT AGT AT AT AT AT -T AT AT -T AC AT AT AGT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * *
1789728 AT GT -T AT AT AT -T AT AT -T AT AT AT -T TT AT GGT AGT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT
1789767 -T AT AT AT -T AT AT AT AT -T AT AT AT AT AT AT AGT AT AT AGT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT
* *
1789808 AG AT -T AT AG AT -T AT AT AT -T AT AT AT -T AT AT AT -T AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1789844 AT -T AT AGT AT A- AT TT AT AT AT AT -T AT AT A- AT AT AT AT -T
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
1789882 AT AT AT -T AT AGC AT AT AT TT AT -T AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
1789911 TATTGTAATA
Statistics
Matches: 174, Mismatches: 16, Indels: 64
0.69 0.06 0.25
Matches are distributed among these distances:
1 24 0.14
2 136 0.78
3 14 0.08
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1789700 original size:7 final size:7
Alignment explanation
Indices: 1789688--1789913 Score: 183
Period size: 7 Copynumber: 31.4 Consensus size: 7
1789678 TCCGGGATAA
1789688 TATATAT
1 TATATAT
1789695 TATATAGT
1 TATATA-T
1789703 ATATATAT
1 -TATATAT
1789711 TATAT-T
1 TATATAT
* *
1789717 ACATATAG
1 -TATATAT
*
1789725 TATATGT
1 TATATAT
1789732 TATATA-
1 TATATAT
1789738 T-TATAT
1 TATATAT
1789744 TATATAT
1 TATATAT
* **
1789751 TTTATGG
1 TATATAT
1789758 TAGTATTAT
1 TA-TA-TAT
1789767 TATATATT
1 TATATA-T
1789775 ATATATAT
1 -TATATAT
1789783 TATATAT
1 TATATAT
*
1789790 ATATATAG
1 -TATATAT
*
1789798 TATATAG
1 TATATAT
*
1789805 TATAGAT
1 TATATAT
*
1789812 TATAGAT
1 TATATAT
1789819 TATATAT
1 TATATAT
1789826 TATATAT
1 TATATAT
1789833 TATATAT
1 TATATAT
1789840 TAT-TAT
1 TATATAT
1789846 TATAGTAT
1 TATA-TAT
* *
1789854 AATTTA-
1 TATATAT
1789860 TATATAT
1 TATATAT
*
1789867 TATATAA
1 TATATAT
1789874 TATATAT
1 TATATAT
1789881 TATATAT
1 TATATAT
*
1789888 TATAGCAT
1 TATA-TAT
*
1789896 ATATTTAT
1 -TATATAT
1789904 TATATAT
1 TATATAT
1789911 TAT
1 TAT
1789914 TGTAATACCC
Statistics
Matches: 177, Mismatches: 26, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
5 4 0.02
6 13 0.07
7 119 0.67
8 23 0.13
9 18 0.10
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:1790164 original size:20 final size:20
Alignment explanation
Indices: 1790139--1790186 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
1790129 GGGTAAATTA
1790139 TCAGTTTTTTAAACTGGTAG
1 TCAGTTTTTTAAACTGGTAG
1790159 TCAGTTTTTTAAACTGGTAG
1 TCAGTTTTTTAAACTGGTAG
1790179 TCAGTTTT
1 TCAGTTTT
1790187 AGAAAAGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.48
Consensus pattern (20 bp):
TCAGTTTTTTAAACTGGTAG
Found at i:1793134 original size:18 final size:18
Alignment explanation
Indices: 1793111--1793152 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
1793101 TGGAGTTTTA
1793111 TATGGAAAGATTATGGAG
1 TATGGAAAGATTATGGAG
*
1793129 TATGGAAGGATTATGGAG
1 TATGGAAAGATTATGGAG
1793147 TATGGA
1 TATGGA
1793153 GTCACAACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.29
Consensus pattern (18 bp):
TATGGAAAGATTATGGAG
Found at i:1793776 original size:26 final size:25
Alignment explanation
Indices: 1793720--1793778 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
1793710 CATTTTATTT
*
1793720 TGTTTTATATCTGAGTCTGAAAATA
1 TGTTTTATATCTGAATCTGAAAATA
* *
1793745 TGTTTTATTTCTGAATACTGATAA-A
1 TGTTTTATATCTGAAT-CTGAAAATA
1793770 TGATTTTAT
1 TG-TTTTAT
1793779 GAGTTTACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 17 0.59
26 12 0.41
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.49
Consensus pattern (25 bp):
TGTTTTATATCTGAATCTGAAAATA
Found at i:1794907 original size:23 final size:23
Alignment explanation
Indices: 1794881--1794951 Score: 71
Period size: 22 Copynumber: 3.2 Consensus size: 23
1794871 GGTGTTACAT
*
1794881 TTATAGTATATTTA-TATTTTATA
1 TTATA-TATATTTATTATTATATA
1794904 TTATCAT-TATTTATTATTATATA
1 TTAT-ATATATTTATTATTATATA
1794927 TT-TAT-TATATTATTATTAT-TA
1 TTATATATAT-TTATTATTATATA
1794948 TTAT
1 TTAT
1794952 TTTTTATTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
21 9 0.21
22 18 0.42
23 15 0.35
24 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (23 bp):
TTATATATATTTATTATTATATA
Found at i:1794922 original size:3 final size:3
Alignment explanation
Indices: 1794902--1794952 Score: 59
Period size: 3 Copynumber: 16.3 Consensus size: 3
1794892 TTATATTTTA
*
1794902 TAT TAT CAT TATT TAT TAT TAT ATATT TAT TA- TAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT -TA-T TAT TAT TAT TAT TAT TAT TAT
1794949 TAT T
1 TAT T
1794953 TTTTATTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 2 0.05
3 32 0.76
4 7 0.17
5 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1794952 original size:38 final size:36
Alignment explanation
Indices: 1794887--1794959 Score: 101
Period size: 38 Copynumber: 2.0 Consensus size: 36
1794877 ACATTTATAG
*
1794887 TATATTTATATTTTATATTATCATTATTTATTATTA
1 TATATTTATATATTATATTATCATTATTTATTATTA
* *
1794923 TATATTTATTATATTATTATTATTATTATTTTTTATT
1 TATATTTA-TATATTA-TATTATCATTATTTATTATT
1794960 TTTTATGTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 8 0.25
37 6 0.19
38 18 0.56
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (36 bp):
TATATTTATATATTATATTATCATTATTTATTATTA
Found at i:1794965 original size:14 final size:14
Alignment explanation
Indices: 1794889--1794965 Score: 50
Period size: 16 Copynumber: 5.2 Consensus size: 14
1794879 ATTTATAGTA
*
1794889 TATTTA-TATTTTA
1 TATTTATTATTTTT
*
1794902 TATTATCATTATTTAT
1 TATT-T-ATTATTTTT
*
1794918 TA-TTATATATTTAT
1 TATTTAT-TATTTTT
1794932 TATATTATTATTATTAT
1 TAT-TTATTATT-TT-T
*
1794949 TATTTTTTATTTTT
1 TATTTATTATTTTT
1794963 TAT
1 TAT
1794966 GTCTAGAAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
13 6 0.12
14 15 0.29
15 8 0.15
16 19 0.37
17 4 0.08
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (14 bp):
TATTTATTATTTTT
Found at i:1798517 original size:19 final size:19
Alignment explanation
Indices: 1798490--1798531 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
1798480 TCATTTGGAC
1798490 AAAAGCATGTACTTTCATT
1 AAAAGCATGTACTTTCATT
* *
1798509 AAAATCATGTATTTTCATT
1 AAAAGCATGTACTTTCATT
1798528 AAAA
1 AAAA
1798532 AAAATCATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (19 bp):
AAAAGCATGTACTTTCATT
Found at i:1802452 original size:19 final size:18
Alignment explanation
Indices: 1802425--1802465 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
1802415 CAATTCGGCC
1802425 AAAAGCATGTACTTTCATT
1 AAAAGCATGTACTTTCA-T
* *
1802444 AAAATCATGTATTTTCAT
1 AAAAGCATGTACTTTCAT
1802462 AAAA
1 AAAA
1802466 CAAATCATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (18 bp):
AAAAGCATGTACTTTCAT
Found at i:1806771 original size:81 final size:79
Alignment explanation
Indices: 1806624--1806776 Score: 182
Period size: 81 Copynumber: 1.9 Consensus size: 79
1806614 TCAAGCTAGG
* * * * *
1806624 TTTCAACCTCAAAGCGAAGTATATCATGCTCAAGACATCCAAGATTGACTCGACTTCATGATGAA
1 TTTCAACCTCAAAGCGAAGGATATCATGCTCAAGACATCCAAAATTGACTCAACTTCACGACGAA
*
1806689 TGGGTCAACCACGA
66 TGAGTCAACCACGA
* ** *
1806703 TTTCAACTTCATAA-CGAAGGATATTGTGCTCAAAGACATTTCAAAATTGACTCAACTTCACGAC
1 TTTCAACCTCA-AAGCGAAGGATATCATGCTC-AAGACA-TCCAAAATTGACTCAACTTCACGAC
1806767 GAATGAGTCA
63 GAATGAGTCA
1806777 CCTGTAATTC
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
79 24 0.39
80 8 0.13
81 29 0.48
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.26
Consensus pattern (79 bp):
TTTCAACCTCAAAGCGAAGGATATCATGCTCAAGACATCCAAAATTGACTCAACTTCACGACGAA
TGAGTCAACCACGA
Found at i:1807066 original size:2 final size:2
Alignment explanation
Indices: 1807054--1807217 Score: 94
Period size: 2 Copynumber: 87.5 Consensus size: 2
1807044 TCCGGGATAG
1807054 TA TA TA T- TA TA TA GTA TA -A GTA TA TA -A TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
1807094 T- TA TA T- TA TA TA TA GTA TA TA T- TA TA TA CTA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * * *
1807134 T- TA TA TA TA T- TT TA TGG TA GTG T- TA T- TA CA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA -TA TA TA TA TA TA TA TA TA TA TA
*
1807173 TA TA TA TA T- TA TA TA T- TA T- TA T- TA TA GTA TA TT TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
1807211 TA TA TA T
1 TA TA TA T
1807218 TATCTTTATT
Statistics
Matches: 129, Mismatches: 8, Indels: 50
0.69 0.04 0.27
Matches are distributed among these distances:
1 18 0.14
2 100 0.78
3 11 0.09
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1807066 original size:7 final size:7
Alignment explanation
Indices: 1807054--1807264 Score: 147
Period size: 7 Copynumber: 30.4 Consensus size: 7
1807044 TCCGGGATAG
1807054 TATATAT
1 TATATAT
*
1807061 TATATAG
1 TATATAT
*
1807068 TATA-AG
1 TATATAT
*
1807074 TATATAA
1 TATATAT
1807081 TATATA-
1 TATATAT
1807087 TATTATAT
1 TA-TATAT
1807095 TATAT-T
1 TATATAT
*
1807101 ATATATAG
1 -TATATAT
1807109 TATATAT
1 TATATAT
*
1807116 TATATAC
1 TATATAT
1807123 TATATAT
1 TATATAT
1807130 TATAT-T
1 TATATAT
1807136 ATATATAT
1 -TATATAT
* **
1807144 TTTATGG
1 TATATAT
*
1807151 TAGTGTTAT
1 TA-T-ATAT
*
1807160 TACATAT
1 TATATAT
1807167 TATATAT
1 TATATAT
1807174 ATATATAT
1 -TATATAT
1807182 TATATAT
1 TATATAT
1807189 TAT-TAT
1 TATATAT
1807195 TATAGTAT
1 TATA-TAT
*
1807203 ATTTATAT
1 -TATATAT
1807211 TATATAT
1 TATATAT
*
1807218 TATCT-T
1 TATATAT
*
1807224 TATTTAT
1 TATATAT
1807231 TAT-TA-
1 TATATAT
1807236 TATAT-T
1 TATATAT
1807242 TATTATAT
1 TA-TATAT
1807250 TAT-TAT
1 TATATAT
1807256 TA-ATAT
1 TATATAT
1807262 TAT
1 TAT
1807265 TTTCGGTTTT
Statistics
Matches: 164, Mismatches: 20, Indels: 40
0.73 0.09 0.18
Matches are distributed among these distances:
5 3 0.02
6 36 0.22
7 99 0.60
8 20 0.12
9 6 0.04
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (7 bp):
TATATAT
Found at i:1807185 original size:13 final size:13
Alignment explanation
Indices: 1807163--1807261 Score: 77
Period size: 13 Copynumber: 7.8 Consensus size: 13
1807153 GTGTTATTAC
1807163 ATATTATATATAT
1 ATATTATATATAT
1807176 ATA-TAT-TATAT
1 ATATTATATATAT
1807187 ATTATTAT-TATAGT
1 A-TATTATATATA-T
1807201 ATATT-TATATTAT
1 ATATTATATA-TAT
* *
1807214 ATATTATCTTTAT
1 ATATTATATATAT
*
1807227 TTATTATTATATAT
1 ATATTA-TATATAT
*
1807241 TTATTATAT-TAT
1 ATATTATATATAT
1807253 -TATTA-ATAT
1 ATATTATATAT
1807262 TATTTTCGGT
Statistics
Matches: 73, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
10 2 0.03
11 12 0.16
12 9 0.12
13 33 0.45
14 17 0.23
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (13 bp):
ATATTATATATAT
Found at i:1807227 original size:67 final size:65
Alignment explanation
Indices: 1807054--1807264 Score: 193
Period size: 67 Copynumber: 3.2 Consensus size: 65
1807044 TCCGGGATAG
* *
1807054 TATA-TATTA-TATAGTATA-AGTATATAATATATATATTATATT-ATATTATATATAGTATATA
1 TATATTATTATTATAGTATATA-TATATTATATAT-TATTTTATTAATATTATATATA-TATATA
1807115 TTA
63 TTA
* * ** *
1807118 TATACTATATATTATA-T-TATATATATTTTATGGTAGTGTTATTACATATTATATATATATATA
1 TATATTAT-TATTATAGTATATATATATTATATATTA-TTTTATTA-ATATTATATATATATATA
1807181 TTA
63 TTA
* * *
1807184 TATATTATTATTATAGTATATTTATATTATATATTATCTTTATTTATTATTATATATTTATTATA
1 TATATTATTATTATAGTATATATATATTATATATTAT-TTTA-TTAATATTATATATATA-TATA
1807249 TTA
63 TTA
*
1807252 T-TATTAATATTAT
1 TATATTATTATTAT
1807265 TTTCGGTTTT
Statistics
Matches: 120, Mismatches: 15, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
64 6 0.05
65 25 0.21
66 22 0.18
67 56 0.47
68 11 0.09
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (65 bp):
TATATTATTATTATAGTATATATATATTATATATTATTTTATTAATATTATATATATATATATTA
Found at i:1809138 original size:158 final size:158
Alignment explanation
Indices: 1808850--1809167 Score: 537
Period size: 158 Copynumber: 2.0 Consensus size: 158
1808840 ATATTAACCC
* *
1808850 TTTAAACAATGCATCAGAGATTAACTCCGAGTATTAAGCCAAGCAGCCAACAAACTAAATGTTGA
1 TTTAAACAATGCATCAGAGATGAACTCCGAGTATTAAGCCAAGCAGCCAACAAACTAAATGCTGA
* *
1808915 ACGGCTACAAAATTGCTCTCGCATGTTTTTTTAACTTGGGGTCTCCACACTTATAAATATGGATG
66 ACGGCTACAAAATTGCTCTCGCATGTTTTTTAAACTTGGGGTCTCCACACTTATAAATAAGGATG
* *
1808980 ACTATTCGATCAAGTCGAGTAAAAAAAA
131 ACTATTCAATCAAGTCAAGTAAAAAAAA
*
1809008 TTTAAACAATGCATCAGAGATGAACTCCGAGTATTAAGCCAAGCAGCCAACAAACTGAATGCTGA
1 TTTAAACAATGCATCAGAGATGAACTCCGAGTATTAAGCCAAGCAGCCAACAAACTAAATGCTGA
* *
1809073 AGGGCTACAAAATTGCTCTCGTATGTTTTTTAAACTTGGGGTCTCCACACTTATAAATAAGGATG
66 ACGGCTACAAAATTGCTCTCGCATGTTTTTTAAACTTGGGGTCTCCACACTTATAAATAAGGATG
* *
1809138 ACTATTCAATTAAGTCAAGTTAAAAAAA
131 ACTATTCAATCAAGTCAAGTAAAAAAAA
1809166 TT
1 TT
1809168 GAGTTATTTG
Statistics
Matches: 149, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
158 149 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (158 bp):
TTTAAACAATGCATCAGAGATGAACTCCGAGTATTAAGCCAAGCAGCCAACAAACTAAATGCTGA
ACGGCTACAAAATTGCTCTCGCATGTTTTTTAAACTTGGGGTCTCCACACTTATAAATAAGGATG
ACTATTCAATCAAGTCAAGTAAAAAAAA
Found at i:1810490 original size:2 final size:2
Alignment explanation
Indices: 1810483--1810507 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1810473 TATGAATACA
1810483 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1810508 GGTTGACCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1810558 original size:12 final size:13
Alignment explanation
Indices: 1810526--1810555 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1810516 TATCAAATTT
1810526 ATAAAGCTTTTTA
1 ATAAAGCTTTTTA
1810539 ATAAAGCTTTTTA
1 ATAAAGCTTTTTA
1810552 ATAA
1 ATAA
1810556 GCTCAAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (13 bp):
ATAAAGCTTTTTA
Found at i:1810708 original size:17 final size:17
Alignment explanation
Indices: 1810686--1810724 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1810676 CCACCATCGA
*
1810686 TTTTTTT-AAATCCAAT
1 TTTTTTTAAAAACCAAT
*
1810702 TTTTTTTAAAAACCAGT
1 TTTTTTTAAAAACCAAT
1810719 TTTTTT
1 TTTTTT
1810725 CAAACCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTTTTTAAAAACCAAT
Found at i:1814732 original size:69 final size:69
Alignment explanation
Indices: 1814646--1814783 Score: 249
Period size: 69 Copynumber: 2.0 Consensus size: 69
1814636 ACATTCTCAG
*
1814646 TAATCCTATTCCATGATAATCTTTTATTTCCACTGGTAAGCTTATATTCCGTGAACCAAACGCAC
1 TAATCCTATTCCATGATAATCTTTTATTCCCACTGGTAAGCTTATATTCCGTGAACCAAACGCAC
1814711 CTTA
66 CTTA
* *
1814715 TAATCCTATTCCCTGATAATCTTTTATTCCCACTGGTAATCTTATATTCCGTGAACCAAACGCAC
1 TAATCCTATTCCATGATAATCTTTTATTCCCACTGGTAAGCTTATATTCCGTGAACCAAACGCAC
1814780 CTTA
66 CTTA
1814784 GTATAAGATT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.36
Consensus pattern (69 bp):
TAATCCTATTCCATGATAATCTTTTATTCCCACTGGTAAGCTTATATTCCGTGAACCAAACGCAC
CTTA
Found at i:1814744 original size:18 final size:19
Alignment explanation
Indices: 1814721--1814764 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
1814711 CTTATAATCC
*
1814721 TATTCC-CTGATAATCTTT
1 TATTCCACTGATAATCTTA
*
1814739 TATTCCCACTGGTAATCTTA
1 TATT-CCACTGATAATCTTA
1814759 TATTCC
1 TATTCC
1814765 GTGAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 4 0.18
20 14 0.64
ACGTcount: A:0.23, C:0.25, G:0.07, T:0.45
Consensus pattern (19 bp):
TATTCCACTGATAATCTTA
Found at i:1814821 original size:18 final size:19
Alignment explanation
Indices: 1814788--1814824 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1814778 ACCTTAGTAT
1814788 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
1814808 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
1814825 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:1818537 original size:59 final size:59
Alignment explanation
Indices: 1818390--1818564 Score: 153
Period size: 59 Copynumber: 3.0 Consensus size: 59
1818380 CTCAAAGAAG
* * * ** * *
1818390 GACCATCATTTTAAATTGATTCTTAAACTTTAAAAATTTTCAATTTCATCCCTAACTAT
1 GACCTTCATTATAAATTGAGTCCCAAACTTTTAAAATTTTCAATTTCATCCCAAACTAT
* * * *
1818449 GACTTTAATTATGAATT-AGTCCTCCAACTTTTAAAATTTTCAATTTCATCCCCAAACTAT
1 GACCTTCATTATAAATTGAGTCC-CAAACTTTTAAAATTTTCAATTTCAT-CCCAAACTAT
* *
1818509 -AGCCTTCATTCTAAATTGA-TCCCAAACTTTTTGAACA-TTT-AATTTCATCCCAAACT
1 GA-CCTTCATTATAAATTGAGTCCCAAAC-TTTT-AAAATTTTCAATTTCATCCCAAACT
1818565 GTGCATATAT
Statistics
Matches: 93, Mismatches: 17, Indels: 13
0.76 0.14 0.11
Matches are distributed among these distances:
58 11 0.12
59 48 0.52
60 30 0.32
61 4 0.04
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.40
Consensus pattern (59 bp):
GACCTTCATTATAAATTGAGTCCCAAACTTTTAAAATTTTCAATTTCATCCCAAACTAT
Found at i:1818837 original size:60 final size:57
Alignment explanation
Indices: 1818690--1818857 Score: 178
Period size: 60 Copynumber: 2.9 Consensus size: 57
1818680 TTTGGATAAA
* *
1818690 TTTGGGGATGAAATTGGAATATTCAAAAGCTTGGAA-AACCAATTTAGAAA-GGTCATAC
1 TTTGGGGATGAAATTGGAATATTCAAAAG-TT-TAAGGACCAATTTA-AAATGGTCATAC
* * * * * * *
1818748 TTTAGGGATGGAATTAGAATGTTCCAAAGTTTAAGGACTAATTTAAAATGTGAATCATAG
1 TTTGGGGATGAAATTGGAATATTCAAAAGTTTAAGGACCAATTTAAAATG-G--TCATAC
*
1818808 TTTGGGGATGAAATTGGAATATTTAAAAGTTTAAGGACCAATTTAAAATG
1 TTTGGGGATGAAATTGGAATATTCAAAAGTTTAAGGACCAATTTAAAATG
1818858 AGTTTTACAG
Statistics
Matches: 89, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
56 5 0.06
57 11 0.12
58 25 0.28
60 48 0.54
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (57 bp):
TTTGGGGATGAAATTGGAATATTCAAAAGTTTAAGGACCAATTTAAAATGGTCATAC
Found at i:1829450 original size:2 final size:2
Alignment explanation
Indices: 1829443--1829490 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1829433 TATTTCCATG
1829443 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
1829485 TA TA TA
1 TA TA TA
1829491 AAATTTATCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1829887 original size:21 final size:21
Alignment explanation
Indices: 1829858--1829910 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1829848 ATTCTGACTA
1829858 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
1829879 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
1829900 TCGCAATGCGA
1 TCGCATTGCGA
1829911 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:1829925 original size:20 final size:20
Alignment explanation
Indices: 1829900--1830054 Score: 193
Period size: 20 Copynumber: 7.7 Consensus size: 20
1829890 TTTTCCTAAT
1829900 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
1829920 TCGCAACGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
1829940 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
1829961 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
1829981 TCGCAACGCGATTACATAAA
1 TCGCAATGCGAATACGTAAA
* *
1830001 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
* *
1830022 TCGTAACGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
1830042 TCGCAATGCGAAT
1 TCGCAATGCGAAT
1830055 CTGACTATCG
Statistics
Matches: 111, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
20 78 0.70
21 33 0.30
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1829972 original size:61 final size:61
Alignment explanation
Indices: 1829900--1830052 Score: 270
Period size: 61 Copynumber: 2.5 Consensus size: 61
1829890 TTTTCCTAAT
*
1829900 TCGCAATGCGAATACGTAAATCGCAACGCGATTACGTAAATCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATACGTAAATCGCAACGCGATTACATAAATCGCAATGCGAATTAGGAAAA
1829961 TCGCAATGCGAATACGTAAATCGCAACGCGATTACATAAATCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATACGTAAATCGCAACGCGATTACATAAATCGCAATGCGAATTAGGAAAA
* * *
1830022 TCGTAACGCGAATACGTAAATCGCAATGCGA
1 TCGCAATGCGAATACGTAAATCGCAACGCGA
1830053 ATCTGACTAT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 88 1.00
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (61 bp):
TCGCAATGCGAATACGTAAATCGCAACGCGATTACATAAATCGCAATGCGAATTAGGAAAA
Found at i:1830053 original size:41 final size:41
Alignment explanation
Indices: 1829900--1830054 Score: 197
Period size: 41 Copynumber: 3.8 Consensus size: 41
1829890 TTTTCCTAAT
* *
1829900 TCGCAATGCGAATACGTAAATCGCAACGCG-ATTACGTAAA
1 TCGCAACGCGAATACGTAAATCGCAATGCGAATTACGTAAA
* * *
1829940 TCGCAATGCGAATTAGGAAAATCGCAATGCGAA-TACGTAAA
1 TCGCAACGCGAA-TACGTAAATCGCAATGCGAATTACGTAAA
* * * *
1829981 TCGCAACGCGATTACATAAATCGCAATGCGAATTAGGAAAA
1 TCGCAACGCGAATACGTAAATCGCAATGCGAATTACGTAAA
*
1830022 TCGTAACGCGAATACGTAAATCGCAATGCGAAT
1 TCGCAACGCGAATACGTAAATCGCAATGCGAAT
1830055 CTGACTATCG
Statistics
Matches: 99, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
40 29 0.29
41 69 0.70
42 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (41 bp):
TCGCAACGCGAATACGTAAATCGCAATGCGAATTACGTAAA
Found at i:1830668 original size:21 final size:21
Alignment explanation
Indices: 1830607--1830699 Score: 106
Period size: 20 Copynumber: 4.6 Consensus size: 21
1830597 TTCTAAACTT
*
1830607 AAAATCGCAAC-ATGAAAATG
1 AAAATCGCAACGACGAAAATG
1830627 AAAATCGCAAC-ACGAAAATG
1 AAAATCGCAACGACGAAAATG
**
1830647 ACTATCGCAACGA-GAGAAATG
1 AAAATCGCAACGACGA-AAATG
1830668 AAAATCGCAACG-CG-AAATG
1 AAAATCGCAACGACGAAAATG
*
1830687 AAAATTGCAACGA
1 AAAATCGCAACGA
1830700 GATAATCGCA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
19 16 0.25
20 30 0.48
21 17 0.27
ACGTcount: A:0.51, C:0.18, G:0.18, T:0.13
Consensus pattern (21 bp):
AAAATCGCAACGACGAAAATG
Found at i:1830686 original size:40 final size:40
Alignment explanation
Indices: 1830607--1830701 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
1830597 TTCTAAACTT
1830607 AAAATCGCAAC-ATGAAAATGAAAATCGCAACACGAAAATG
1 AAAATCGCAACGA-GAAAATGAAAATCGCAACACGAAAATG
** *
1830647 ACTATCGCAACGAGAGAAATGAAAATCGCAACGCG-AAATG
1 AAAATCGCAACGAGA-AAATGAAAATCGCAACACGAAAATG
*
1830687 AAAATTGCAACGAGA
1 AAAATCGCAACGAGA
1830702 TAATCGCAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 28 0.60
41 19 0.40
ACGTcount: A:0.51, C:0.18, G:0.19, T:0.13
Consensus pattern (40 bp):
AAAATCGCAACGAGAAAATGAAAATCGCAACACGAAAATG
Found at i:1830766 original size:14 final size:14
Alignment explanation
Indices: 1830747--1830801 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1830737 TTCATTTCGT
1830747 GTTGCGATTCTCTC
1 GTTGCGATTCTCTC
*
1830761 GTTGCGATTTTCATTTCGC
1 GTTGCGA--TTC---TCTC
1830780 GTTGCGATTCTCTC
1 GTTGCGATTCTCTC
1830794 GTTGCGAT
1 GTTGCGAT
1830802 AGTCATTTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.24, G:0.24, T:0.44
Consensus pattern (14 bp):
GTTGCGATTCTCTC
Found at i:1830771 original size:33 final size:33
Alignment explanation
Indices: 1830729--1830850 Score: 154
Period size: 33 Copynumber: 3.5 Consensus size: 33
1830719 CAAAATCGAA
*
1830729 TTGCGATTTTCATTTCGTGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1830762 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
1830795 TTGCGATAGTCATTTCCGCGTTGCGATTTTCATTCTCTCG
1 TTGCGATTTTCATTT-CGCGTTGCG------ATTCTCTCG
1830835 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1830851 AACCAAAAGA
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
33 45 0.58
34 9 0.12
39 1 0.01
40 22 0.29
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1830827 original size:20 final size:20
Alignment explanation
Indices: 1830760--1830850 Score: 81
Period size: 20 Copynumber: 4.9 Consensus size: 20
1830750 GCGATTCTCT
1830760 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATTTTCATTTCCG
*
1830779 CGTTGCGA--TTC---T-CT
1 CGTTGCGATTTTCATTTCCG
**
1830793 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCCG
*
1830813 CGTTGCGATTTTCA-TTCTCT
1 CGTTGCGATTTTCATTTC-CG
1830833 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
1830851 AACCAAAAGA
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
14 10 0.17
16 2 0.03
17 3 0.05
19 12 0.21
20 28 0.48
21 3 0.05
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTCCG
Found at i:1832728 original size:94 final size:93
Alignment explanation
Indices: 1832537--1832912 Score: 616
Period size: 94 Copynumber: 4.1 Consensus size: 93
1832527 TAGATTGCTT
* *
1832537 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1832598 ATTTGTCTTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGA
1832627 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1832692 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* *
1832721 AGTAAATTTGTTCGGTTGCTACCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1832786 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * * * *
1832815 AGTAAATTTGTTCGTTTGCTGCCAATTCTGTTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1832880 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
1832908 AGTAA
1 AGTAA
1832913 TGCAATCCAT
Statistics
Matches: 272, Mismatches: 9, Indels: 7
0.94 0.03 0.02
Matches are distributed among these distances:
90 35 0.13
92 3 0.01
93 28 0.10
94 206 0.76
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:1833047 original size:39 final size:38
Alignment explanation
Indices: 1833003--1833078 Score: 125
Period size: 39 Copynumber: 2.0 Consensus size: 38
1832993 TATTTTGGTT
1833003 GAAACGAAAATCGCAACAAGAGAATGAAAATCGCAACGC
1 GAAACGAAAATCGCAACAAGA-AATGAAAATCGCAACGC
**
1833042 GAAACGAAAATCGCAACGCGAAATGAAAATCGCAACG
1 GAAACGAAAATCGCAACAAGAAATGAAAATCGCAACG
1833079 ACAAAATCGT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 16 0.46
39 19 0.54
ACGTcount: A:0.50, C:0.21, G:0.21, T:0.08
Consensus pattern (38 bp):
GAAACGAAAATCGCAACAAGAAATGAAAATCGCAACGC
Found at i:1833052 original size:19 final size:19
Alignment explanation
Indices: 1833003--1833118 Score: 125
Period size: 19 Copynumber: 6.3 Consensus size: 19
1832993 TATTTTGGTT
**
1833003 GAAACGAAAATCGCAACAA
1 GAAACGAAAATCGCAACGC
*
1833022 GAGAATGAAAATCGCAACGC
1 GA-AACGAAAATCGCAACGC
1833042 GAAACGAAAATCGCAACGC
1 GAAACGAAAATCGCAACGC
*
1833061 GAAATGAAAATCGCAA--C
1 GAAACGAAAATCGCAACGC
*
1833078 G--AC-AAAATCGTAACGC
1 GAAACGAAAATCGCAACGC
*
1833094 GAAACCAAAAATCGCAACGC
1 GAAA-CGAAAATCGCAACGC
1833114 GAAAC
1 GAAAC
1833119 TATAATCGCG
Statistics
Matches: 82, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
14 9 0.11
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 35 0.43
20 32 0.39
ACGTcount: A:0.50, C:0.23, G:0.19, T:0.08
Consensus pattern (19 bp):
GAAACGAAAATCGCAACGC
Found at i:1833223 original size:20 final size:19
Alignment explanation
Indices: 1833124--1833245 Score: 94
Period size: 19 Copynumber: 6.6 Consensus size: 19
1833114 GAAACTATAA
*
1833124 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
*
1833143 TCGCATTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
1833157 TCTCGTTGCAATTTTTATT
1 TCGCGTTGCGATTTTCATT
* * *
1833176 TCGAGATGTGATTTT-AGTT
1 TCGCGTTGCGATTTTCA-TT
1833195 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
1833214 CTCTCGTTGCAATTTTCATT
1 -TCGCGTTGCGATTTTCATT
1833234 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1833246 AGCCATTTTT
Statistics
Matches: 77, Mismatches: 18, Indels: 16
0.69 0.16 0.14
Matches are distributed among these distances:
14 8 0.10
16 2 0.03
17 2 0.03
18 1 0.01
19 46 0.60
20 18 0.23
ACGTcount: A:0.15, C:0.19, G:0.20, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1833746 original size:21 final size:21
Alignment explanation
Indices: 1833722--1833788 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1833712 TCATTCCTCG
1833722 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
1833743 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
1833764 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
1833785 AGAG
1 AGAG
1833789 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:1833746 original size:42 final size:42
Alignment explanation
Indices: 1833670--1833788 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
1833660 GACTCGCCTG
* * * * * * *
1833670 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
1833712 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
1833754 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
1833789 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:1835329 original size:19 final size:19
Alignment explanation
Indices: 1835268--1835319 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
1835258 AAAAATGACT
*
1835268 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
1835287 ATCACAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
1835306 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
1835320 CTAAATTCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:1835347 original size:19 final size:19
Alignment explanation
Indices: 1835325--1835475 Score: 98
Period size: 19 Copynumber: 8.7 Consensus size: 19
1835315 CGAAACTAAA
1835325 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1835344 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
1835359 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1835377 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
1835392 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1835410 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
1835425 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
1835443 TTCGCATTGCGATAGTCATT
1 TTCGCGTTGCGATTTTCA-T
1835463 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
1835476 AGACATTAAG
Statistics
Matches: 98, Mismatches: 18, Indels: 31
0.67 0.12 0.21
Matches are distributed among these distances:
14 26 0.27
16 9 0.09
17 9 0.09
19 41 0.42
20 13 0.13
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:1835371 original size:33 final size:33
Alignment explanation
Indices: 1835329--1835455 Score: 236
Period size: 33 Copynumber: 3.8 Consensus size: 33
1835319 ACTAAATTCG
* *
1835329 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1835362 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1835395 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1835428 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
1835456 AGTCATTTTC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 92 1.00
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:1835402 original size:14 final size:14
Alignment explanation
Indices: 1835350--1835437 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 14
1835340 TCATTTCGCT
*
1835350 TTGCGATTCCCTCG
1 TTGCGATTCTCTCG
*
1835364 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
1835381 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
*
1835397 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
1835414 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
1835430 TTGCGATT
1 TTGCGATT
1835438 TTCATTTCGC
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
14 20 0.34
16 14 0.24
17 13 0.22
19 12 0.20
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:1835467 original size:20 final size:20
Alignment explanation
Indices: 1835442--1835482 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1835432 GCGATTTTCA
*
1835442 TTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGACAT
*
1835462 TTTCGCGTTGCGATAGACAT
1 TTTCGCATTGCGATAGACAT
1835482 T
1 T
1835483 AAGATGATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (20 bp):
TTTCGCATTGCGATAGACAT
Found at i:1835521 original size:20 final size:20
Alignment explanation
Indices: 1835449--1835521 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
1835439 TCATTTCGCA
* *
1835449 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTACGTG
* *
1835469 TTGCGATAGACA-TTAAGATG
1 TTGCGATAGTCATTTACG-TG
*
1835489 ATTGCGA-ACGTCATTTCCGTG
1 -TTGCGATA-GTCATTTACGTG
1835510 TTGCGATAGTCA
1 TTGCGATAGTCA
1835522 AATGAATGCC
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.07
20 23 0.56
21 12 0.29
22 3 0.07
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCATTTACGTG
Found at i:1838026 original size:24 final size:24
Alignment explanation
Indices: 1837992--1838045 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1837982 CTGAAAAATC
1837992 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1838016 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1838040 ATCAAA
1 ATCAAA
1838046 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1838059 original size:24 final size:24
Alignment explanation
Indices: 1837992--1838059 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
1837982 CTGAAAAATC
* * *
1837992 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
1838016 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
1838040 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
1838060 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:1838931 original size:20 final size:20
Alignment explanation
Indices: 1838908--1839095 Score: 100
Period size: 21 Copynumber: 9.3 Consensus size: 20
1838898 AGAATCTCGT
1838908 TGCGATTTACTAAATCGCAA
1 TGCGATTTACTAAATCGCAA
* * *
1838928 TGCGATTAAGTAAACCGCAA
1 TGCGATTTACTAAATCGCAA
* **
1838948 TGCGAATTAGGAAAATCGCAA
1 TGCGATTTA-CTAAATCGCAA
*
1838969 TGCGA-TTACGT-ATTCG-AA
1 TGCGATTTAC-TAAATCGCAA
*
1838987 TTGCGATTTACGT-AATCGCAT
1 -TGCGATTTAC-TAAATCGCAA
*
1839008 TGCGATTTTCCTAAATCGCAA
1 TGCGA-TTTACTAAATCGCAA
* * *
1839029 TGCGA-ATAC-ATAATCGTAT
1 TGCGATTTACTA-AATCGCAA
**
1839048 TGCGATTTAGGAAAATCGCAA
1 TGCGATTTA-CTAAATCGCAA
* ***
1839069 CGCGAATTTGGGAAATCGCAA
1 TGCG-ATTTACTAAATCGCAA
1839090 TGCGAT
1 TGCGAT
1839096 AGTCAGAATC
Statistics
Matches: 130, Mismatches: 26, Indels: 24
0.72 0.14 0.13
Matches are distributed among these distances:
18 3 0.02
19 22 0.17
20 47 0.36
21 53 0.41
22 5 0.04
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (20 bp):
TGCGATTTACTAAATCGCAA
Found at i:1838994 original size:60 final size:61
Alignment explanation
Indices: 1838920--1839095 Score: 178
Period size: 60 Copynumber: 2.9 Consensus size: 61
1838910 CGATTTACTA
* * *
1838920 AATCGCAA-TGCGA-TTAAGTAAACCGCAATGCGAATTAGGAAAATCGCAATGCGATTACGT
1 AATCG-AATTGCGATTTAAGTAAATCGCAATGCGAATTTGGAAAATCGCAATGCGATTACAT
* * * * *** *
1838980 ATTCGAATTGCGATTTACGT-AATCGCATTGCGATTTTCCTAAATCGCAATGCGAATACAT
1 AATCGAATTGCGATTTAAGTAAATCGCAATGCGAATTTGGAAAATCGCAATGCGATTACAT
* * * * *
1839040 AATCGTATTGCGATTTAGGAAAATCGCAACGCGAATTTGGGAAATCGCAATGCGAT
1 AATCGAATTGCGATTTAAGTAAATCGCAATGCGAATTTGGAAAATCGCAATGCGAT
1839096 AGTCAGAATC
Statistics
Matches: 91, Mismatches: 22, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
59 2 0.02
60 56 0.62
61 33 0.36
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (61 bp):
AATCGAATTGCGATTTAAGTAAATCGCAATGCGAATTTGGAAAATCGCAATGCGATTACAT
Found at i:1842451 original size:14 final size:14
Alignment explanation
Indices: 1842416--1842467 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
1842406 CTAACGTTTG
*
1842416 AATCTTAAATCGT-A
1 AATCTTAAA-CTTCA
1842430 AATC-TAAACTTCA
1 AATCTTAAACTTCA
*
1842443 AATCTTAAAATTCTA
1 AATCTTAAACTTC-A
1842458 AATCTTAAAC
1 AATCTTAAAC
1842468 ATGAAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 2 0.06
13 9 0.28
14 11 0.34
15 10 0.31
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.35
Consensus pattern (14 bp):
AATCTTAAACTTCA
Found at i:1846621 original size:12 final size:12
Alignment explanation
Indices: 1846604--1846637 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
1846594 ATTTGTTGAC
1846604 AATTTTTTTAAT
1 AATTTTTTTAAT
1846616 AATTTTTTTAAT
1 AATTTTTTTAAT
1846628 AATTTATTTT
1 AATTT-TTTT
1846638 CTTTGAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
AATTTTTTTAAT
Found at i:1851804 original size:30 final size:30
Alignment explanation
Indices: 1851753--1851863 Score: 95
Period size: 30 Copynumber: 3.7 Consensus size: 30
1851743 TTAAAACTAC
1851753 AAGGACCAAAATAGAAAAAACATA-AACTTA
1 AAGGACCAAAATAGAAAAAACA-AGAACTTA
* * *
1851783 AAGGACCAAAATAGTACAAACAAGAATTTA
1 AAGGACCAAAATAGAAAAAACAAGAACTTA
*
1851813 AAGGACTAAAAT-GACAAAAATC-AGAAACTTA
1 AAGGACCAAAATAGA-AAAAA-CAAG-AACTTA
* *
1851844 AATGG-CTAAAATAGTAAAAA
1 AA-GGACCAAAATAGAAAAAA
1851864 TTGAAACTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
29 2 0.03
30 42 0.63
31 20 0.30
32 3 0.04
ACGTcount: A:0.59, C:0.12, G:0.13, T:0.16
Consensus pattern (30 bp):
AAGGACCAAAATAGAAAAAACAAGAACTTA
Found at i:1851853 original size:31 final size:30
Alignment explanation
Indices: 1851810--1851887 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
1851800 AAACAAGAAT
1851810 TTAAA-GGACTAAAAT-GACAAAAATCAGAAAC
1 TTAAATGG-CTAAAATAG-CAAAAAT-AGAAAC
* *
1851841 TTAAATGGCTAAAATAGTAAAAATTGAAAC
1 TTAAATGGCTAAAATAGCAAAAATAGAAAC
* *
1851871 TAAAATGACTAAAATAG
1 TTAAATGGCTAAAATAG
1851888 TAATTACAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 20 0.49
31 18 0.44
32 3 0.07
ACGTcount: A:0.56, C:0.09, G:0.13, T:0.22
Consensus pattern (30 bp):
TTAAATGGCTAAAATAGCAAAAATAGAAAC
Found at i:1852750 original size:31 final size:31
Alignment explanation
Indices: 1852715--1852774 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
1852705 TTAAGGTAAG
* *
1852715 TTTCAGTTTTTGTTTC-TTTTTCTATTTTGTT
1 TTTCACTTTTTCTTTCGTTTTT-TATTTTGTT
1852746 TTTCACTTTTTCTTTCGGTTTTTTATTTT
1 TTTCACTTTTTCTTTC-GTTTTTTATTTT
1852775 TAAAACTCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 14 0.56
32 6 0.24
33 5 0.20
ACGTcount: A:0.07, C:0.12, G:0.08, T:0.73
Consensus pattern (31 bp):
TTTCACTTTTTCTTTCGTTTTTTATTTTGTT
Found at i:1853460 original size:3 final size:3
Alignment explanation
Indices: 1853452--1853539 Score: 169
Period size: 3 Copynumber: 29.7 Consensus size: 3
1853442 ATGTAATTGT
1853452 TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1853499 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1853540 GTATTTTTGT
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 82 0.98
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1854000 original size:43 final size:40
Alignment explanation
Indices: 1853939--1854050 Score: 122
Period size: 43 Copynumber: 2.8 Consensus size: 40
1853929 GAGGGTGATA
*
1853939 ACACAGTTCCTACGTGATGAGGATGGCTGGTTATCTAGGGG-TG
1 ACACAGATCCTACGTGATGAGGATGGCTGG-T-TC--GGGGATG
*
1853982 ACACAGATCCTACATGATGAGGA-GGTCTGGTTCGGGGATG
1 ACACAGATCCTACGTGATGAGGATGG-CTGGTTCGGGGATG
* *
1854022 ACAC-GGTTCTACGTGATGAGGATGGCTGG
1 ACACAGATCCTACGTGATGAGGATGGCTGG
1854051 CCATCTTTAG
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
39 23 0.38
40 8 0.13
41 2 0.03
42 3 0.05
43 25 0.41
ACGTcount: A:0.22, C:0.17, G:0.36, T:0.25
Consensus pattern (40 bp):
ACACAGATCCTACGTGATGAGGATGGCTGGTTCGGGGATG
Found at i:1854109 original size:28 final size:28
Alignment explanation
Indices: 1854069--1854158 Score: 108
Period size: 28 Copynumber: 3.1 Consensus size: 28
1854059 AGGGATTATG
** *
1854069 GTTTCAAGGGAAACCGACTCAAAGATTT
1 GTTTCAAAAGAAACAGACTCAAAGATTT
1854097 GTTTCAAAAGAAACAGACTCAAAGATTT
1 GTTTCAAAAGAAACAGACTCAAAGATTT
* * *
1854125 GTTTCAAGAAAAAACAAACTCAAAAATTTT
1 GTTTCAA-AAGAAACAGACTCAAAGA-TTT
1854155 GTTT
1 GTTT
1854159 GTTTTGTTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 32 0.59
29 15 0.28
30 7 0.13
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.28
Consensus pattern (28 bp):
GTTTCAAAAGAAACAGACTCAAAGATTT
Found at i:1854701 original size:36 final size:36
Alignment explanation
Indices: 1854617--1854730 Score: 156
Period size: 38 Copynumber: 3.1 Consensus size: 36
1854607 AAAATTTGTG
* *
1854617 GAAAAATGTCTCAAGTGAGACAAAATTTGTTTTTAA
1 GAAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAA
*
1854653 GAGAAAGTTGTCTCAAGCAAGACAAAATTTGTTTTTAA
1 GA-AAA-TTGTCTCAAGCGAGACAAAATTTGTTTTTAA
* *
1854691 GAAAATTGTCTCTAGCGAGACAACACTTTGTTTTTAA
1 GAAAATTGTCTCAAGCGAGACAA-AATTTGTTTTTAA
1854728 GAA
1 GAA
1854731 GATAATCTCA
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
36 18 0.26
37 21 0.30
38 30 0.43
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (36 bp):
GAAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAA
Found at i:1861184 original size:187 final size:189
Alignment explanation
Indices: 1860824--1861199 Score: 722
Period size: 186 Copynumber: 2.0 Consensus size: 189
1860814 ACCCATGAAT
1860824 ACAACTTAGGACTAAAATGAACTAGACATGAACATATAGGACTCAATGAGAAATAAACCCAAAAC
1 ACAACTTAGGACTAAAATGAACTAGACATGAACATATAGGACTCAATGAGAAATAAACCCAAAAC
1860889 ACATGGGCATTAAAGATGGTGACTAGAATGAACTCGGGGCAAAATATATGCTTTAAAACATAAAA
66 ACATGGGCATTAAAGATGGTGACTAGAATGAACTCGGGGCAAAATATATGCTTTAAAACATAAAA
1860954 CACACGATTTACACATTCAAAAATATTCAGGACGACAATTG-A-ATACACAATTAAAGG
131 CACACGATTTACACATTCAAAAATATTCAGGACGACAATTGAATATACACAATTAAAGG
1861011 ACAACTTAGGACT-AAATGAACTAGACATGAACATATAGGACTCAATGAGAAATAAACCCAAAAC
1 ACAACTTAGGACTAAAATGAACTAGACATGAACATATAGGACTCAATGAGAAATAAACCCAAAAC
1861075 ACATGGGCATTAAAGATGGTGACTAGAATGAACTCGGGGCAAAATATATGCTTTAAAACATAAAA
66 ACATGGGCATTAAAGATGGTGACTAGAATGAACTCGGGGCAAAATATATGCTTTAAAACATAAAA
1861140 CACACGATTTTACACATTCAAAAATATTCAGGACGACAATTGAATATACACAATTAAAGG
131 CACACGA-TTTACACATTCAAAAATATTCAGGACGACAATTGAATATACACAATTAAAGG
1861200 TCCAAAATCT
Statistics
Matches: 186, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
186 123 0.66
187 47 0.25
188 1 0.01
189 15 0.08
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.21
Consensus pattern (189 bp):
ACAACTTAGGACTAAAATGAACTAGACATGAACATATAGGACTCAATGAGAAATAAACCCAAAAC
ACATGGGCATTAAAGATGGTGACTAGAATGAACTCGGGGCAAAATATATGCTTTAAAACATAAAA
CACACGATTTACACATTCAAAAATATTCAGGACGACAATTGAATATACACAATTAAAGG
Found at i:1862426 original size:3 final size:3
Alignment explanation
Indices: 1862418--1862514 Score: 162
Period size: 3 Copynumber: 32.7 Consensus size: 3
1862408 ATGTAATTGT
1862418 TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1862465 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TTAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
1862510 TAA TA
1 TAA TA
1862515 TTTTTGTAGA
Statistics
Matches: 89, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
2 4 0.04
3 82 0.92
4 3 0.03
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1864717 original size:23 final size:24
Alignment explanation
Indices: 1864686--1864730 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
1864676 GACTTGTTTA
* *
1864686 TAAGTTTGTTTA-TCGACTCTTTG
1 TAAGCTTGTTTACTCGAATCTTTG
1864709 TAAGCTTGTTTACTCGAATCTT
1 TAAGCTTGTTTACTCGAATCTT
1864731 CTTTTCCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.49
Consensus pattern (24 bp):
TAAGCTTGTTTACTCGAATCTTTG
Found at i:1870437 original size:132 final size:131
Alignment explanation
Indices: 1870148--1870514 Score: 373
Period size: 132 Copynumber: 2.8 Consensus size: 131
1870138 CGATATTGAC
* * * * * * *
1870148 AATAGCAATATCT-TTTCATTTCGGTCGGAGTAATAAATGACTACTTAAAGGCATGAGATGTCAT
1 AATAGTAATATCTCTTT-ATTTCGATTGGAGTAATAAATGAATGCTTTAAGGCATGAGAGGTCAT
* * * * * *
1870212 TTATTCTCGATTAGAAATAATTTGATATTTTCG-TTTCTCTGGAATTAATATCAGTTTTTAAGAT
65 TTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTGGAATCAATATCAGATTTTAAGAT
*
1870276 GG
130 GA
* * * * * *
1870278 AATAATGATATCTCTTCATTTTGATTGGAGAAATAAATGAATGCTTTAAGGTATGAGAGGTCATT
1 AATAGTAATATCTCTTTATTTCGATTGGAGTAATAAATGAATGCTTTAAGGCATGAGAGGTCATT
* * * *
1870343 TATTCTCAATTGGAAAATCATTAGATATTATCGTTTTCACTTGAATCAATAT-TGAATTTTAAGA
66 TATTCTCGATTGG-AAATAATTAGATATTATCGTTTTCACTGGAATCAATATCAG-ATTTTAAGA
1870407 TGA
129 TGA
* * * * * * *
1870410 AATAGTAATATCTCTTTATTTCAATTGGGGTAATAAATGATTG-TTTCAATGCACGAAAGGTTAT
1 AATAGTAATATCTCTTTATTTCGATTGGAGTAATAAATGAATGCTTT-AAGGCATGAGAGGTCAT
* *
1870474 TTATTATCGATTGGAAATAATTAGATATTATCATTTTCACT
65 TTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACT
1870515 CTTAATATTA
Statistics
Matches: 191, Mismatches: 41, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
130 60 0.31
131 47 0.25
132 84 0.44
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (131 bp):
AATAGTAATATCTCTTTATTTCGATTGGAGTAATAAATGAATGCTTTAAGGCATGAGAGGTCATT
TATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTGGAATCAATATCAGATTTTAAGATG
A
Found at i:1871818 original size:45 final size:43
Alignment explanation
Indices: 1871726--1871822 Score: 108
Period size: 45 Copynumber: 2.2 Consensus size: 43
1871716 CTGAATAAAT
*
1871726 GCATGTGAACTAGATATCATGCGGTTAGGTTCATTTTTCAAACAA
1 GCATGTGAACTAGATATCATGAGGTTAGG-T-ATTTTTCAAACAA
*
1871771 GCATGTGAACTAGATGA-CATGAGGTTAGG-ATTTTCTATAAACAAA
1 GCATGTGAACTAGAT-ATCATGAGGTTAGGTATTTT-T-CAAAC-AA
1871816 GCATGTG
1 GCATGTG
1871823 GGTAGAAATC
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
42 5 0.11
43 1 0.02
44 4 0.09
45 35 0.76
46 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (43 bp):
GCATGTGAACTAGATATCATGAGGTTAGGTATTTTTCAAACAA
Found at i:1877105 original size:134 final size:133
Alignment explanation
Indices: 1876722--1877604 Score: 1011
Period size: 134 Copynumber: 6.6 Consensus size: 133
1876712 GTGAATCAAA
* * * **
1876722 CTCGATTCAATCTTCCCTGAGTGAGAATAGAATGAATCAACATCCCCAGATCTGATACTCCCTCA
1 CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTCA
* * * * *
1876787 AGAAGAAGCGAAACATATCCCTCTTTTTCAAGATTTGATATTCTCTGAGTAATAGTAGAATAAGT
66 AGAAGAAGCG-AACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGT
*
1876852 CTTC
130 CTGC
* * * * *
1876856 CTCGATTCAATCTTCCCTAAGTGACAGTGGAATGAATCAACGT-CCCATATATGATTTTCCTTCA
1 CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTCA
* * * * * *
1876920 AGAATAAGCAAAACAGATCCCTCTCTTTCAAGATTTGATACTCCCTAAGTAACAGTGGAACAAGT
66 AGAAGAAGC-GAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGT
1876985 CTGC
130 CTGC
* * * * *
1876989 CTCGATTCAATCTTTCTTGAGTGATAGTAGAATGGATCAAC-TCCCCGAGATCTGATTTTCCCTC
1 CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACATCCCC-AGATCTGATTTTCCCTC
* * * *
1877053 AAGAAGAAGCTGAACAAATCCCTCTCTTTCAAGATTTGATATTTCCTGAGTAACAATGGAACGAG
65 AAGAAGAAGC-GAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAG
* *
1877118 ACTAC
129 TCTGC
* **
1877123 CTCGATTTAATCTTCTTTGAGTGACAGTGGAATGAATCAACATCCCCAGATAC-GATTTTCCCTC
1 CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACATCCCCAGAT-CTGATTTTCCCTC
* * ** * * * *
1877187 AAGAAGAAGCATAACATATCATTCTATTCCAATATTTGATACTCCCT-ATGTAATAGTGGAACAA
65 AAGAAGAAGC-GAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGA-GTAATAGTGGAACAA
1877251 GTCTGC
128 GTCTGC
* * * *
1877257 CTGGATTCAATCTTCCCTGAGTGACAGTGGAATAAATCAACGTCCCCAGATCTGATTTTCCCTTA
1 CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTCA
*
1877322 AGAAGAAGCGAAACAAATCCCTCTCTTTTAAGATTTGATATTCCCTGAGTAATAGTGGAA-AATG
66 AGAAGAAGCG-AACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAA-G
*
1877386 TCTAC
129 TCTGC
* * * * * * *
1877391 CTCGATTCAATATTCTCTGAGTGATAGTGGAATGAATCAACGTCCCCAGATATGATATTCCCTCT
1 CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTCA
* * *
1877456 AGAAGAAGAGGAACAAATCCTTCTCTTTCAAGATTTGATATTCCCTGAGTTATAGTGGAACAAGT
66 AGAAGAAG-CGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGT
*
1877521 TTGC
130 CTGC
** * ** * *
1877525 CTTAATTCAATCTTCCCTGAGTGACAGTAGAATGAATCAACATTTCTAGATATGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTCA
*
1877590 AAAAGAAGCGGAACA
66 AGAAGAAGC-GAACA
1877605 GGTCCCTCAT
Statistics
Matches: 628, Mismatches: 108, Indels: 26
0.82 0.14 0.03
Matches are distributed among these distances:
132 1 0.00
133 115 0.18
134 502 0.80
135 10 0.02
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (133 bp):
CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTCA
AGAAGAAGCGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGTC
TGC
Found at i:1877327 original size:268 final size:266
Alignment explanation
Indices: 1876722--1877604 Score: 1128
Period size: 268 Copynumber: 3.3 Consensus size: 266
1876712 GTGAATCAAA
* * **
1876722 CTCGATTCAATCTTCCCTGAGTGAGAATAGAATGAATCAACATCCCCAGATCTGATACTCCCTCA
1 CTCGATTCAATCTTCCCTGAGTGACAGTAGAATGAATCAACATCCCCAGATCTGATTTTCCCTCA
* * *
1876787 AGAAGAAGCGAAACATATCCCTCTTTTTCAAGATTTGATA-TTCTCTGAGTAATAGTAGAATAAG
66 AGAAGAAGCGAAACAAATCCCTCTCTTTCAAGATTTGATATTTC-CTGAGTAATAGTGGAA-AAG
* * * *
1876851 TCTTCCTCGATTCAATCTTCCCTAAGTGACAGTGGAATGAATCAACGT-CCCATATATGATTTTC
129 TCTACCTCGATTCAATCTTCTCTGAGTGACAGTGGAATGAATCAACGTCCCCAGATATGATTTTC
* * * * *
1876915 CTTCAAGAATAAGCAAAACAGATCCCTCTCTTTCAAGATTTGATACTCCCTAAGTAACAGTGGAA
194 CCTCAAGAAGAAGCAAAACAAATCCTTCTCTTTCAAGATTTGATACTCCCT-AGTAATAGTGGAA
1876980 CAAGTCTGC
258 CAAGTCTGC
* * * *
1876989 CTCGATTCAATCTTTCTTGAGTGATAGTAGAATGGATCAAC-TCCCCGAGATCTGATTTTCCCTC
1 CTCGATTCAATCTTCCCTGAGTGACAGTAGAATGAATCAACATCCCC-AGATCTGATTTTCCCTC
* * *
1877053 AAGAAGAAGCTG-AACAAATCCCTCTCTTTCAAGATTTGATATTTCCTGAGTAACAATGGAACGA
65 AAGAAGAAGC-GAAACAAATCCCTCTCTTTCAAGATTTGATATTTCCTGAGTAATAGTGGAA-AA
* * * * *
1877117 GACTACCTCGATTTAATCTTCTTTGAGTGACAGTGGAATGAATCAACATCCCCAGATACGATTTT
128 GTCTACCTCGATTCAATCTTCTCTGAGTGACAGTGGAATGAATCAACGTCCCCAGATATGATTTT
* * * * * *
1877182 CCCTCAAGAAGAAGCATAACATATCATTCTATTCCAATATTTGATACTCCCTATGTAATAGTGGA
193 CCCTCAAGAAGAAGCAAAACAAATCCTTCTCTTTCAAGATTTGATACTCCCTA-GTAATAGTGGA
1877247 ACAAGTCTGC
257 ACAAGTCTGC
* * * * *
1877257 CTGGATTCAATCTTCCCTGAGTGACAGTGGAATAAATCAACGTCCCCAGATCTGATTTTCCCTTA
1 CTCGATTCAATCTTCCCTGAGTGACAGTAGAATGAATCAACATCCCCAGATCTGATTTTCCCTCA
* *
1877322 AGAAGAAGCGAAACAAATCCCTCTCTTTTAAGATTTGATATTCCCTGAGTAATAGTGGAAAATGT
66 AGAAGAAGCGAAACAAATCCCTCTCTTTCAAGATTTGATATTTCCTGAGTAATAGTGGAAAA-GT
* * *
1877387 CTACCTCGATTCAATATTCTCTGAGTGATAGTGGAATGAATCAACGTCCCCAGATATGATATTCC
130 CTACCTCGATTCAATCTTCTCTGAGTGACAGTGGAATGAATCAACGTCCCCAGATATGATTTTCC
* * * *
1877452 CTCTAGAAGAAG-AGGAACAAATCCTTCTCTTTCAAGATTTGATATTCCCTGAGTTATAGTGGAA
195 CTCAAGAAGAAGCA-AAACAAATCCTTCTCTTTCAAGATTTGATACTCCCT-AGTAATAGTGGAA
*
1877516 CAAGTTTGC
258 CAAGTCTGC
** ** * *
1877525 CTTAATTCAATCTTCCCTGAGTGACAGTAGAATGAATCAACATTTCTAGATATGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAGTGACAGTAGAATGAATCAACATCCCCAGATCTGATTTTCCCTCA
* *
1877590 AAAAGAAGCGGAACA
66 AGAAGAAGCGAAACA
1877605 GGTCCCTCAT
Statistics
Matches: 530, Mismatches: 76, Indels: 19
0.85 0.12 0.03
Matches are distributed among these distances:
266 5 0.01
267 148 0.28
268 371 0.70
269 6 0.01
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (266 bp):
CTCGATTCAATCTTCCCTGAGTGACAGTAGAATGAATCAACATCCCCAGATCTGATTTTCCCTCA
AGAAGAAGCGAAACAAATCCCTCTCTTTCAAGATTTGATATTTCCTGAGTAATAGTGGAAAAGTC
TACCTCGATTCAATCTTCTCTGAGTGACAGTGGAATGAATCAACGTCCCCAGATATGATTTTCCC
TCAAGAAGAAGCAAAACAAATCCTTCTCTTTCAAGATTTGATACTCCCTAGTAATAGTGGAACAA
GTCTGC
Found at i:1877539 original size:402 final size:401
Alignment explanation
Indices: 1876726--1877604 Score: 1133
Period size: 402 Copynumber: 2.2 Consensus size: 401
1876716 ATCAAACTCG
* * **
1876726 ATTCAATCTTCCCTGAGTGAGAATAGAATGAATCAACATCCCCAGAT-CTGATACTCCCTCAAGA
1 ATTCAATCTTCCCTGAGTGACAGTAGAATGAATCAACATCCCCAGATAC-GATTTTCCCTCAAGA
* * * * * * *
1876790 AGAAGCGAAACATATCCCTCTTTTTCAAGATTTGATATTCTCTGAGTAATAGTAGAATAAGTCTT
65 AGAAGCGAAACATATCACTCTATTCCAAGATTTGATACTCCCTGAGTAATAGTAGAACAAGTCTG
* *
1876855 CCTCGATTCAATCTTCCCTAAGTGACAGTGGAATGAATCAACGTCCCATATATGATTTTCCTTCA
130 CCTCGATTCAATCTTCCCTAAGTGACAGTGGAATAAATCAACGTCCCAGATATGATTTTCCTTCA
* *
1876920 AGAATAAGCAAAACAGATCCCTCTCTTTCAAGATTTGATACTCCCTAAGTAACAGTGGAACAAGT
195 AGAAGAAGCAAAACAAATCCCTCTCTTTCAAGATTTGATACTCCCTAAGTAACAGTGGAACAAGT
* * * * *
1876985 CTGCCTCGATTCAATCTTTCTTGAGTGATAGTAGAATGGATCAACTCCCCGAGATCTGATTTTCC
260 CTACCTCGATTCAATATTTCTTGAGTGATAGTAGAATGAATCAACTCCCCGAGATATGATATTCC
** *
1877050 CTCAAGAAGAAGCTGAACAAATCCCTCTCTTTCAAGATTTGATATTTCCTGAGTAACAATGGAAC
325 CTCAAGAAGAAGAGGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAATGGAAC
* *
1877115 GAGACTACCTCG
390 AAGACTACCTCA
* ** *
1877127 ATTTAATCTTCTTTGAGTGACAGTGGAATGAATCAACATCCCCAGATACGATTTTCCCTCAAGAA
1 ATTCAATCTTCCCTGAGTGACAGTAGAATGAATCAACATCCCCAGATACGATTTTCCCTCAAGAA
* * *
1877192 GAAGC-ATAACATATCATTCTATTCCAATATTTGATACTCCCT-ATGTAATAGTGGAACAAGTCT
66 GAAGCGA-AACATATCACTCTATTCCAAGATTTGATACTCCCTGA-GTAATAGTAGAACAAGTCT
* * *
1877255 GCCTGGATTCAATCTTCCCTGAGTGACAGTGGAATAAATCAACGTCCCCAGATCTGATTTTCCCT
129 GCCTCGATTCAATCTTCCCTAAGTGACAGTGGAATAAATCAACGT-CCCAGATATGATTTT-CCT
* * * * *
1877320 T-AAGAAGAAGCGAAACAAATCCCTCTCTTTTAAGATTTGATATTCCCTGAGTAATAGTGGAA-A
192 TCAAGAAGAAGCAAAACAAATCCCTCTCTTTCAAGATTTGATACTCCCTAAGTAACAGTGGAACA
*
1877383 ATGTCTACCTCGATTCAATA-TTCTCTGAGTGATAGTGGAATGAATCAACGTCCCC-AGATATGA
257 A-GTCTACCTCGATTCAATATTTCT-TGAGTGATAGTAGAATGAATCAAC-TCCCCGAGATATGA
* * * * *
1877446 TATTCCCTCTAGAAGAAGAGGAACAAATCCTTCTCTTTCAAGATTTGATATTCCCTGAGTTATAG
319 TATTCCCTCAAGAAGAAGAGGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAA
** * *
1877511 TGGAACAAGTTTGCCTTA
384 TGGAACAAGACTACCTCA
** * * *
1877529 ATTCAATCTTCCCTGAGTGACAGTAGAATGAATCAACATTTCTAGATATGATTTTCCCTCAAAAA
1 ATTCAATCTTCCCTGAGTGACAGTAGAATGAATCAACATCCCCAGATACGATTTTCCCTCAAGAA
*
1877594 GAAGCGGAACA
66 GAAGCGAAACA
1877605 GGTCCCTCAT
Statistics
Matches: 409, Mismatches: 60, Indels: 17
0.84 0.12 0.03
Matches are distributed among these distances:
400 2 0.00
401 152 0.37
402 246 0.60
403 9 0.02
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (401 bp):
ATTCAATCTTCCCTGAGTGACAGTAGAATGAATCAACATCCCCAGATACGATTTTCCCTCAAGAA
GAAGCGAAACATATCACTCTATTCCAAGATTTGATACTCCCTGAGTAATAGTAGAACAAGTCTGC
CTCGATTCAATCTTCCCTAAGTGACAGTGGAATAAATCAACGTCCCAGATATGATTTTCCTTCAA
GAAGAAGCAAAACAAATCCCTCTCTTTCAAGATTTGATACTCCCTAAGTAACAGTGGAACAAGTC
TACCTCGATTCAATATTTCTTGAGTGATAGTAGAATGAATCAACTCCCCGAGATATGATATTCCC
TCAAGAAGAAGAGGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAATGGAACA
AGACTACCTCA
Found at i:1877745 original size:3 final size:3
Alignment explanation
Indices: 1877737--1877763 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1877727 GTCCGGTTAT
1877737 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1877764 ACACTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1879798 original size:131 final size:130
Alignment explanation
Indices: 1879552--1879919 Score: 416
Period size: 131 Copynumber: 2.8 Consensus size: 130
1879542 CGATATTGAG
* * * * * *
1879552 AATAGTAATATCTTTTCATTCCGGTCGGAGTAATAAATCACTGCTTAAAGGCATGAGAGGTCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACT-CTTTAAGGCATGAGAGGTCATT
* * * * * * * * *
1879617 TATTTTGGATTTGAAATAATTTGATATT-GCTGTTTTCTCTCAAATTAATATTGACTTTTAAGAT
65 TATTCTCGATTGGAAATAATTAGATATTATC-GTTTTCACTCAAATCAATATTGAATTTTAACAT
1879681 GGA
129 -GA
* * *
1879684 AA-AGTGATATCTCTTCATTTCGATTGGAGCAATAAATGACTACTTTAAGGTATGAGAGGTCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACT-CTTTAAGGCATGAGAGGTCATT
* ***
1879748 TATTCTCGATTGGAAATCATTAGATATTATCGTTTTCACTTGCATCAATATTGAATTTTAACATG
65 TATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTCAAATCAATATTGAATTTTAACATG
1879813 A
130 A
* * * * * * *
1879814 AATAGTAATATCTCTTTATTTCAATTGGGGTAATAAATGACTGTTTCAATGCACGAAAGGTCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTCTTT-AAGGCATGAGAGGTCATT
1879879 TATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTC
65 TATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTC
1879920 TTAAAATTAT
Statistics
Matches: 198, Mismatches: 35, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
130 7 0.04
131 188 0.95
132 3 0.02
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.39
Consensus pattern (130 bp):
AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTCTTTAAGGCATGAGAGGTCATTT
ATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTCAAATCAATATTGAATTTTAACATGA
Found at i:1883288 original size:23 final size:24
Alignment explanation
Indices: 1883260--1883304 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
1883250 AGCTAGTTTA
*
1883260 TAAGTTTATTTA-TCGACTCTTTG
1 TAAGTTTATTTACTCGAATCTTTG
*
1883283 TAAGTTTGTTTACTCGAATCTT
1 TAAGTTTATTTACTCGAATCTT
1883305 CTTTTCCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.22, C:0.13, G:0.13, T:0.51
Consensus pattern (24 bp):
TAAGTTTATTTACTCGAATCTTTG
Found at i:1884953 original size:29 final size:28
Alignment explanation
Indices: 1884908--1884975 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 28
1884898 TTTGGCTATG
* * *
1884908 TTATTTATTTCGA-ATTAACTACTAACTT
1 TTATTTATTGC-ATATTAACCACTAACAT
* *
1884936 TTATTTTATTGCATATTATCCACTGACAT
1 TTA-TTTATTGCATATTAACCACTAACAT
1884965 TTATTTATTGC
1 TTATTTATTGC
1884976 TGATATTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
28 12 0.36
29 21 0.64
ACGTcount: A:0.28, C:0.15, G:0.06, T:0.51
Consensus pattern (28 bp):
TTATTTATTGCATATTAACCACTAACAT
Found at i:1885485 original size:12 final size:12
Alignment explanation
Indices: 1885468--1885497 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1885458 AGTCCTTATG
1885468 TTATTTATGATT
1 TTATTTATGATT
1885480 TTATTTATGATT
1 TTATTTATGATT
*
1885492 CTATTT
1 TTATTT
1885498 CATTTAAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.67
Consensus pattern (12 bp):
TTATTTATGATT
Found at i:1886736 original size:7 final size:7
Alignment explanation
Indices: 1886724--1886749 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1886714 CTTCTTTTCC
1886724 TTTTATT
1 TTTTATT
1886731 TTTTATT
1 TTTTATT
1886738 TTTTATT
1 TTTTATT
1886745 TTTTA
1 TTTTA
1886750 AATATTAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:1887895 original size:21 final size:21
Alignment explanation
Indices: 1887851--1887895 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
1887841 ACATTAAATG
*
1887851 AATGTTAAACGAACATGTCACA
1 AATGTTAAACGAACA-GACACA
1887873 AATGTTAAACGAAC-GAACACA
1 AATGTTAAACGAACAG-ACACA
1887894 AA
1 AA
1887896 CACCTTCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 6 0.29
22 14 0.67
ACGTcount: A:0.51, C:0.18, G:0.13, T:0.18
Consensus pattern (21 bp):
AATGTTAAACGAACAGACACA
Found at i:1888549 original size:940 final size:943
Alignment explanation
Indices: 1886686--1888603 Score: 2904
Period size: 940 Copynumber: 2.0 Consensus size: 943
1886676 TTAGTTTATT
* **
1886686 GACTCTTTGTAAGCTTATTTACTCGAACCTT-CTTTTCCTTTTATTTTTTATTTTTTATTTTTTA
1 GACTCTTTGTAAGCTTGTTTACTCGAATTTTGCTTTTCCTTTTATTTTTTA-----TA--TTTTA
* *
1886750 AATATTAGTGACGATGGGAACTAAATTGAACATAAGGTGAACTTTGACGTTTAAACTGTGAAGCC
59 AATATTAGTGACGATGGGAACTAAATTGAACATAACGTGAACTTTGAAGTTTAAACTGTGAAGCC
*
1886815 TAAGGAAATTAAGGACTAGTGGCATGATTTTACAATTTTTCTTTGACTTACGAATAAAAAGATAA
124 TAAGGAAATTAAGGACTAGTGGCATGATTTTACAATTTTTCTTTGACTTACGAACAAAAAGATAA
** * * * *
1886880 AAAAGAGAGTGTTGGTTTTTGAACATTAAATTAATGTTGAACCAACGTGTAACGAATGCTAAACG
189 AAAAGAGAGTGTTGGTTTTCAAACATTAAATGAATGTTAAACCAACATGTAACAAATGCTAAACG
*
1886945 AACGAACACGAACACCTTCAAAAACACAAACGAATATGAACATGATACTCAAGTTTAAACGAACA
254 AACGAACACAAACACCTTCAAAAACACAAACGAATATGAACATGATACTCAAGTTTAAACGAACA
* * *
1887010 CGAACCAAATATGAACACCTTTAAAAATAAGCAAACAAACACGAATATAGCTCTATTCTATTCGT
319 CGAAACAAATATGAACACCTTTAAAAATAAGCAAACAAACACGAACATAACTCTATTCTATTCGT
1887075 TCAAGTTTGGTTGATTTACAACCATATCTATTACACTTGGTAAAAAGATGTTAAGAAAAAGAAAA
384 TCAAGTTTGGTTGATTTACAACCATATCTATTACACTTGGTAAAAAGATGTTAAGAAAAAGAAAA
* *
1887140 TAGTTGTTTAATAAATTTTCAATTATAATAATAGTATTTATGCAGTTTCATTTTGATCAACTAAC
449 TAGTTGTTTAATAAATTTTCAATTATAATAAGAGTATTTATGCAGTTTCATTTTGATCAACAAAC
**
1887205 TAGTTTTTTTCTTTCAAAATCATACTAAAGGTTCATTTTGGTCACCCATTGTTAAAAAATTAATG
514 TAGTTTTTTTCTTTCAAAATCATACTAAAGGTTCATTTTGGTCACCCATTGTTAAAAAAACAATG
* * * *
1887270 GTGACATTGACATGTGACCATAAGGTAATACAACATTATTATTGAAAAAATAAAAAAAATTATCA
579 ATGACATTGACATGTCACCATAAGGTAATACAACATTATCATTGAAAAAATAAAAAAAATTAGCA
* * * *
1887335 TGCCATCAATTTTATTTTTTTATTAACAGTAATGACCAAAATAGAACCGATATATAACATTATGT
644 TGCCATCAATTTTATTTATTTATTAACAATAATGACCAAAACAGAACCAATATATAACATTATGT
* * *
1887400 ATAATTTTATAAAAAATAGTCAGATTATCAAAATAAAACTACCTTAAATGAATAGAGCATTCAAC
709 ATAATTTTATAAAAAATAGTCAGATTATCAAAATAAAACAACATTAAATGAATAGAACATTCAAC
* * * * *
1887465 GAACTATTCGTGAACCGTTCGTGTAACATTAGTTTATTAAACTAAATAAATGAGTATGGACAAAA
774 GAACTATTCATGAACCGTTCATATAACATTAGTCTATTAAACTAAATAAATGAGTATGAACAAAA
* * ** * *
1887530 TTTTTATGATTATTTAATAAATGAATGAACATGAATAAATGTGTGTTTGATTCATTTATGTTCAC
839 TTTTTATGATAATTTAATAAACGAACCAACATGAATAAATGTGTGTTTGATTCAATCATGTTCAC
* *
1887595 GAACAAGCTCATTTATT-G-A-CTTATTAGTTTGTCTATC
904 GAACAAGCTCATTTATTAGCAGCTTATAAGTTCGTCTATC
*
1887632 GACTCTTTGTAAGCTTGTTTACTTGAATTTTGCTTTTCCTTTTATTTTTTATATTTTAAATATTA
1 GACTCTTTGTAAGCTTGTTTACTCGAATTTTGCTTTTCCTTTTATTTTTTATATTTTAAATATTA
* *
1887697 GTGACGATGGGGACTAAATTGAACATAACGTGAACTTTGAAGTTTAAGCTGTGAAGCCTAAGGAA
66 GTGACGATGGGAACTAAATTGAACATAACGTGAACTTTGAAGTTTAAACTGTGAAGCCTAAGGAA
* *
1887762 CTTAAGGACTAGTGGCATGATTTTATAATTTTTCTTTGACTTACGAAC-AAAAGAATAAAAAA-A
131 ATTAAGGACTAGTGGCATGATTTTACAATTTTTCTTTGACTTACGAACAAAAAG-ATAAAAAAGA
* * *
1887825 GAGTGTTGGTTTTCAAACATTAAATGAATGTTAAACGAACATGTCACAAATGTTAAACGAACGAA
195 GAGTGTTGGTTTTCAAACATTAAATGAATGTTAAACCAACATGTAACAAATGCTAAACGAACGAA
*
1887890 CACAAACACCTTCAAGAACACATAAACGAATATGAACATGATACTCAAGTTT-AACGAACACGAA
260 CACAAACACCTTCAA-AA-ACACAAACGAATATGAACATGATACTCAAGTTTAAACGAACACGAA
* *
1887954 ACAAATATGGACACCTTTAAAAATAAGCAAACGAACACGAACATAACTCTATTCTATTCGTTCAA
323 ACAAATATGAACACCTTTAAAAATAAGCAAACAAACACGAACATAACTCTATTCTATTCGTTCAA
*
1888019 GTTTGGTTGATTTACACCCATATCTATTACACTTGGTAAAAAGATGTTAAGAAAAAGAAAATAGT
388 GTTTGGTTGATTTACAACCATATCTATTACACTTGGTAAAAAGATGTTAAGAAAAAGAAAATAGT
* ** **
1888084 TGTTTAATGAATTTTCAATTATAATAAGAGTATTTATGTGGTTTTGTTTTGATCAACAAACTAG-
453 TGTTTAATAAATTTTCAATTATAATAAGAGTATTTATGCAGTTTCATTTTGATCAACAAACTAGT
* ** * *
1888148 TTTTTTCTTTCAAAATCATACTTAAGGTTTGTTTTGGTTACTCATTGTTAAAAAAACAATGATGA
518 TTTTTTCTTTCAAAATCATACTAAAGGTTCATTTTGGTCACCCATTGTTAAAAAAACAATGATGA
* * * * *
1888213 CGTTTACGTGTCACCATAAGGTAATACTAA-ATTATCATTGAAAAAATAAATAAAATT-GCCTCG
583 CATTGACATGTCACCATAAGGTAATAC-AACATTATCATTGAAAAAATAAAAAAAATTAGCAT-G
* *
1888276 CCGTCAATTTTATTTATTTATTAACAATGATGACCAAAACAGAACCAATATATAACATTATGTAT
646 CCATCAATTTTATTTATTTATTAACAATAATGACCAAAACAGAACCAATATATAACATTATGTAT
1888341 AATTTTATAAAAAAATAGTCAGATTATCAAAATAAAACAACATTAAATGAATAGAACATTCAACG
711 AATTTTAT-AAAAAATAGTCAGATTATCAAAATAAAACAACATTAAATGAATAGAACATTCAACG
* * * *
1888406 AACTATTCATGAACCGTTCATATAGCATTAGTCTATTAAGCTAAATAAATGCGTATGAACAAATT
775 AACTATTCATGAACCGTTCATATAACATTAGTCTATTAAACTAAATAAATGAGTATGAACAAAAT
*
1888471 TTTTATGATAATTTAATAAACGAACCAACATGAATAAATGTGTGTTTGATT-AGATCGTGTTCAC
840 TTTTATGATAATTTAATAAACGAACCAACATGAATAAATGTGTGTTTGATTCA-ATCATGTTCAC
* *
1888535 GAACAAGCTCATTTATTAGCTAGTTTATAAGTTCGTTTATC
904 GAACAAGCTCATTTATTAGC-AGCTTATAAGTTCGTCTATC
1888576 GACTCTTTGTAAGCTTGTTTACTCGAAT
1 GACTCTTTGTAAGCTTGTTTACTCGAAT
1888604 CTTCTTGTAA
Statistics
Matches: 879, Mismatches: 81, Indels: 26
0.89 0.08 0.03
Matches are distributed among these distances:
938 2 0.00
939 250 0.28
940 504 0.57
941 33 0.04
942 2 0.00
943 1 0.00
944 41 0.05
946 27 0.03
947 19 0.02
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (943 bp):
GACTCTTTGTAAGCTTGTTTACTCGAATTTTGCTTTTCCTTTTATTTTTTATATTTTAAATATTA
GTGACGATGGGAACTAAATTGAACATAACGTGAACTTTGAAGTTTAAACTGTGAAGCCTAAGGAA
ATTAAGGACTAGTGGCATGATTTTACAATTTTTCTTTGACTTACGAACAAAAAGATAAAAAAGAG
AGTGTTGGTTTTCAAACATTAAATGAATGTTAAACCAACATGTAACAAATGCTAAACGAACGAAC
ACAAACACCTTCAAAAACACAAACGAATATGAACATGATACTCAAGTTTAAACGAACACGAAACA
AATATGAACACCTTTAAAAATAAGCAAACAAACACGAACATAACTCTATTCTATTCGTTCAAGTT
TGGTTGATTTACAACCATATCTATTACACTTGGTAAAAAGATGTTAAGAAAAAGAAAATAGTTGT
TTAATAAATTTTCAATTATAATAAGAGTATTTATGCAGTTTCATTTTGATCAACAAACTAGTTTT
TTTCTTTCAAAATCATACTAAAGGTTCATTTTGGTCACCCATTGTTAAAAAAACAATGATGACAT
TGACATGTCACCATAAGGTAATACAACATTATCATTGAAAAAATAAAAAAAATTAGCATGCCATC
AATTTTATTTATTTATTAACAATAATGACCAAAACAGAACCAATATATAACATTATGTATAATTT
TATAAAAAATAGTCAGATTATCAAAATAAAACAACATTAAATGAATAGAACATTCAACGAACTAT
TCATGAACCGTTCATATAACATTAGTCTATTAAACTAAATAAATGAGTATGAACAAAATTTTTAT
GATAATTTAATAAACGAACCAACATGAATAAATGTGTGTTTGATTCAATCATGTTCACGAACAAG
CTCATTTATTAGCAGCTTATAAGTTCGTCTATC
Found at i:1893449 original size:31 final size:31
Alignment explanation
Indices: 1893403--1893461 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
1893393 TGTGAGAATG
*
1893403 TTACATGAGCTATGTGATAATAAGCTATGATA
1 TTACATGACCTATGTGAT-ATAAGCTATGATA
*
1893435 TTACATG-CCTATGTGATATAAGTTATG
1 TTACATGACCTATGTGATATAAGCTATG
1893462 TGAATTGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 9 0.36
31 9 0.36
32 7 0.28
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (31 bp):
TTACATGACCTATGTGATATAAGCTATGATA
Found at i:1893578 original size:23 final size:22
Alignment explanation
Indices: 1893548--1893638 Score: 112
Period size: 23 Copynumber: 4.1 Consensus size: 22
1893538 GGTTCTACGC
*
1893548 GGTCCTTCGGGACAATTCTAAGT
1 GGTCCTTCGGGAC-ATTCTATGT
* *
1893571 GGTTCTTCGAGACATTTCTATGT
1 GGTCCTTCGGGACA-TTCTATGT
* *
1893594 AGTCCTTTGGGACA-TCTATGT
1 GGTCCTTCGGGACATTCTATGT
1893615 GGTCCTTCGGGACATTCTATGT
1 GGTCCTTCGGGACATTCTATGT
1893637 GG
1 GG
1893639 CACTTCTATG
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
21 19 0.33
22 10 0.18
23 28 0.49
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (22 bp):
GGTCCTTCGGGACATTCTATGT
Found at i:1893623 original size:44 final size:45
Alignment explanation
Indices: 1893549--1893636 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 45
1893539 GTTCTACGCG
*
1893549 GTCCTTCGGGACAATTCTAAGTGGTTCTTCGAGACATTTCTATGTA
1 GTCCTTCGGGACAATTCTAAGTGGTCCTTCGAGACA-TTCTATGTA
* * *
1893595 GTCCTTTGGGAC-A-TCTATGTGGTCCTTCGGGACATTCTATGT
1 GTCCTTCGGGACAATTCTAAGTGGTCCTTCGAGACATTCTATGT
1893637 GGCACTTCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 8 0.21
44 18 0.47
45 1 0.03
46 11 0.29
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (45 bp):
GTCCTTCGGGACAATTCTAAGTGGTCCTTCGAGACATTCTATGTA
Found at i:1894188 original size:27 final size:27
Alignment explanation
Indices: 1894155--1894215 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
1894145 TATAAAATTG
1894155 TATTTTCAATGATCTTATAAAAACAAA
1 TATTTTCAATGATCTTATAAAAACAAA
1894182 TATTTTCAATGATCTTATAAAAACAAA
1 TATTTTCAATGATCTTATAAAAACAAA
1894209 TATTTTC
1 TATTTTC
1894216 GAGAAGTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.41
Consensus pattern (27 bp):
TATTTTCAATGATCTTATAAAAACAAA
Found at i:1901286 original size:243 final size:242
Alignment explanation
Indices: 1900863--1901425 Score: 673
Period size: 243 Copynumber: 2.3 Consensus size: 242
1900853 CTTTTACCCG
* * ***
1900863 AAGGCATTTAGCCTTTCATCTAACTTGCATGATTGACATCTTTCCGCCAAATGCACAACTAGGCA
1 AAGGTATTTAACCTTTCATCTAA-TTGCATGATTGACATCTTTCTATCAAATGCACAACTAGGCA
* * * * * * **
1900928 TTTAATCTTTAATTCAAAGGAATTTAACCTTTCATCTAACTGACATAATTGACATCTTTCTGTCA
65 ATTAATCTTTTACTCAAAGGAATTTAACCTTTCAGCTAACTGACATAATTAACACCTTTCAATCA
* * * * * **
1900993 AATGCACATCTAGGGAATTAATTTTTTACTCAAAGACATTTAACCTTTCATCTAACTGTCATAAT
130 AATGCACAACTAGGCAAATAATCTTTTACTAAAAGACATTTAACCTTTCATCTAACTGGAATAAT
* * * * *
1901058 TGACACCTTTCTGTCAAATACAGAGCTAGGA-AATTAATCTTTTACTTA
195 GGACACATTTATGTCAAATACACAGCTA-GACAATTAATCTTTAACTTA
* * *
1901106 AAGGTATTTAACCTTTCATCTAATTGACATGATTGACATCTTTCTATTAAATGCAGAGCTAGGCA
1 AAGGTATTTAACCTTTCATCTAATTG-CATGATTGACATCTTTCTATCAAATGCACAACTAGGCA
* * *
1901171 ATTAACCTTTTACTCAAAGGCATTTAACCTTTCAGCTAACTGGCATAATTAACACCTTTCAATCA
65 ATTAATCTTTTACTCAAAGGAATTTAACCTTTCAGCTAACTGACATAATTAACACCTTTCAATCA
** * *
1901236 AATGCACAACTAGGCAAATAATCTTTTACTAAAAGGTATTTAGA-CTTTCATTTAAGTGGAATAA
130 AATGCACAACTAGGCAAATAATCTTTTACTAAAAGACATTTA-ACCTTTCATCTAACTGGAATAA
* * *
1901300 TGGACACATTTATGTTAAATGCACAGTTAGACAATTAATCTTTAACTTA
194 TGGACACATTTATGTCAAATACACAGCTAGACAATTAATCTTTAACTTA
* * * *
1901349 AAGGTATTTAACATTTCATCTAACTGGCATAATTGACA-CATTTCTCTCAAATGCACAACTAGGC
1 AAGGTATTTAACCTTTCATCTAA-TTGCATGATTGACATC-TTTCTATCAAATGCACAACTAGGC
1901413 AATTAATCTTTTA
64 AATTAATCTTTTA
1901426 TTTAAAACAG
Statistics
Matches: 269, Mismatches: 46, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
242 6 0.02
243 260 0.97
244 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (242 bp):
AAGGTATTTAACCTTTCATCTAATTGCATGATTGACATCTTTCTATCAAATGCACAACTAGGCAA
TTAATCTTTTACTCAAAGGAATTTAACCTTTCAGCTAACTGACATAATTAACACCTTTCAATCAA
ATGCACAACTAGGCAAATAATCTTTTACTAAAAGACATTTAACCTTTCATCTAACTGGAATAATG
GACACATTTATGTCAAATACACAGCTAGACAATTAATCTTTAACTTA
Found at i:1901424 original size:162 final size:161
Alignment explanation
Indices: 1900853--1901425 Score: 661
Period size: 162 Copynumber: 3.5 Consensus size: 161
1900843 AACATTTAGA
* * * * * * *
1900853 CTTTTACCCGAAGGCATTTAGCCTTTCATCTAACTTGCATGATTGACATCTTTC-CGCCAAATGC
1 CTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTC-TCAAATGC
* * * * *
1900917 ACAACTAGGCATTTAATCTTTAATTCAAAGGAATTTAACCTTTCATCTAACTGACATAATTGACA
65 ACAACTAGGCAATTAATCTTTTACTAAAAGGTATTTAACCTTTCATCTAA-TGACATAATTGACA
* *
1900982 TCTTTCTGTCAAATGCACA-TCTAGGGAATTAAT
129 TCTTTCTGTTAAATGCACAGT-TAGGCAATTAAT
* * * * *
1901015 TTTTTACTCAAAGACATTTAACCTTTCATCTAACTGTCATAATTGACACCTTTCTGTCAAATACA
1 CTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTCTCAAATGCA
* * * * *
1901080 GAGCTAGGAAATTAATCTTTTACTTAAAGGTATTTAACCTTTCATCTAATTGACATGATTGACAT
66 CAACTAGGCAATTAATCTTTTACTAAAAGGTATTTAACCTTTCATCTAA-TGACATAATTGACAT
* * * *
1901145 CTTTCTATTAAATGCAGAGCTAGGCAATTAAC
130 CTTTCTGTTAAATGCACAGTTAGGCAATTAAT
* * **
1901177 CTTTTACTCAAAGGCATTTAACCTTTCAGCTAACTGGCATAATTAACACCTTTCAATCAAATGCA
1 CTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTCTCAAATGCA
* * *
1901242 CAACTAGGCAAATAATCTTTTACTAAAAGGTATTTAGA-CTTTCATTTAAGTGGA-ATAATGGAC
66 CAACTAGGCAATTAATCTTTTACTAAAAGGTATTTA-ACCTTTCATCTAA-T-GACATAATTGAC
* *
1901305 A-CATTTATGTTAAATGCACAGTTAGACAATTAAT
128 ATC-TTTCTGTTAAATGCACAGTTAGGCAATTAAT
* * * * *
1901339 CTTTAACTTAAAGGTATTTAACATTTCATCTAACTGGCATAATTGACACATTTCTCTCAAATGCA
1 CTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTCTCAAATGCA
1901404 CAACTAGGCAATTAATCTTTTA
66 CAACTAGGCAATTAATCTTTTA
1901426 TTTAAAACAG
Statistics
Matches: 345, Mismatches: 61, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
161 1 0.00
162 341 0.99
163 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (161 bp):
CTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTCTCAAATGCA
CAACTAGGCAATTAATCTTTTACTAAAAGGTATTTAACCTTTCATCTAATGACATAATTGACATC
TTTCTGTTAAATGCACAGTTAGGCAATTAAT
Found at i:1901431 original size:81 final size:80
Alignment explanation
Indices: 1900853--1901425 Score: 599
Period size: 81 Copynumber: 7.1 Consensus size: 80
1900843 AACATTTAGA
* * * * * * * *
1900853 CTTTTACCCGAAGGCATTTAGCCTTTCATCTAACTTGCATGATTGACATCTTTCCGCCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA-CTTTCTGTCAAATGCA
*
1900918 CAACTAGGCATTTAAT
65 CAACTAGGCAATTAAT
* * * *
1900934 CTTTAATTCAAAGGAATTTAACCTTTCATCTAACTGACATAATTGACATCTTTCTGTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA-CTTTCTGTCAAATGCA
* *
1900999 CATCTAGGGAATTAAT
65 CAACTAGGCAATTAAT
* ** * *
1901015 TTTTTACTCAAAGACATTTAACCTTTCATCTAACTGTCATAATTGACACCTTTCTGTCAAATACA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA-CTTTCTGTCAAATGCA
* * *
1901080 GAGCTAGGAAATTAAT
65 CAACTAGGCAATTAAT
* * * * * *
1901096 CTTTTACTTAAAGGTATTTAACCTTTCATCTAATTGACATGATTGACATCTTTCTATTAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA-CTTTCTGTCAAATGCA
* * *
1901161 GAGCTAGGCAATTAAC
65 CAACTAGGCAATTAAT
* * * **
1901177 CTTTTACTCAAAGGCATTTAACCTTTCAGCTAACTGGCATAATTAACACCTTTCAATCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA-CTTTCTGTCAAATGCA
*
1901242 CAACTAGGCAAATAAT
65 CAACTAGGCAATTAAT
* * * * * * *
1901258 CTTTTACTAAAAGGTATTTAGA-CTTTCATTTAAGTGGAATAATGGACACATTTATGTTAAATGC
1 CTTTTACTCAAAGGTATTTA-ACCTTTCATCTAACTGGCATAATTGACAC-TTTCTGTCAAATGC
** *
1901322 ACAGTTAGACAATTAAT
64 ACAACTAGGCAATTAAT
* * * *
1901339 CTTTAACTTAAAGGTATTTAACATTTCATCTAACTGGCATAATTGACACATTTCTCTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAC-TTTCTGTCAAATGCA
1901404 CAACTAGGCAATTAAT
65 CAACTAGGCAATTAAT
1901420 CTTTTA
1 CTTTTA
1901426 TTTAAAACAG
Statistics
Matches: 407, Mismatches: 82, Indels: 6
0.82 0.17 0.01
Matches are distributed among these distances:
80 2 0.00
81 404 0.99
82 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (80 bp):
CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTCTGTCAAATGCAC
AACTAGGCAATTAAT
Found at i:1908007 original size:81 final size:81
Alignment explanation
Indices: 1907913--1908485 Score: 752
Period size: 81 Copynumber: 7.1 Consensus size: 81
1907903 AAGCATTTAG
* * * * ** * *
1907913 TCTTTTACCCAAAGGCATTTAGCCTTTCATATAACTTGCATGTTTAACACCTTTCTGCCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* * *
1907978 AGAGCTAGGCATTTAA
66 ACAACTAGGCAATTAA
* * * * * * *
1907994 TCTTTAACTCAAAGGCATTTAGCCTTTCATCTAACTGACATAATTTACACATTTTTGTCAAATAC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
1908059 ACAGCTAGGCAATTAA
66 ACAACTAGGCAATTAA
* * * *
1908075 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAAATGTCATAATTGACACATTTCTATCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
1908140 ATAACTAGGCAATTAA
66 ACAACTAGGCAATTAA
* * * * * * *
1908156 TCTTTTACTAAAAGGTATTTAAACTTTCATCTAACTGGCATAATTGACACATTTATTTCATATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
1908221 ACAACTAGGTAATTAA
66 ACAACTAGGCAATTAA
* *
1908237 TATTTTACTCAAAGGCATTTAACCTTTCATATAACTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
1908302 ACAACTTGGCAATTAA
66 ACAACTAGGCAATTAA
* * * *
1908318 TCTTTTACTCAATGGTATTTAACCTTTCATCTAACTGGTATAGTTGA-ACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
1908382 ACAACTAGGTAATTAA
66 ACAACTAGGCAATTAA
* * *
1908398 TCTTTAACTCAAAGGTATTTAACCTTTCATCTAACTGGAATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1908463 ACAACTAGGCAATTAA
66 ACAACTAGGCAATTAA
1908479 TCTTTTA
1 TCTTTTA
1908486 TTTAAAATAG
Statistics
Matches: 432, Mismatches: 59, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
80 74 0.17
81 358 0.83
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAACTAGGCAATTAA
Found at i:1908575 original size:22 final size:21
Alignment explanation
Indices: 1908540--1908580 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1908530 ACACACATTA
*
1908540 AAAACATATATAATATAAAGT
1 AAAACATACATAATATAAAGT
*
1908561 AAAACATACATTAATTTAAA
1 AAAACATACA-TAATATAAA
1908581 CATTTAAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAACATACATAATATAAAGT
Found at i:1909044 original size:94 final size:95
Alignment explanation
Indices: 1908892--1909072 Score: 249
Period size: 94 Copynumber: 1.9 Consensus size: 95
1908882 CCATGGTATC
* * * *
1908892 GATACTTTTATACTGTGGTACCGATACTCCCTTTTAGTATCGATACCATTTCTACATTCTGG-AT
1 GATACTTCTATACTATGGTACCGATACTCCCTTTCAGTATCAATACCATTTCTACATTCTGGAAT
1908956 CCATGGTATCAATACTTTCCTTCTAGTACT
66 CCATGGTATCAATACTTTCCTTCTAGTACT
* * * *
1908986 GATACTTCTATACTATGGTATCGATATTCCCTTTCAGTATCAATACTATTT-TGGCATTCTGGAA
1 GATACTTCTATACTATGGTACCGATACTCCCTTTCAGTATCAATACCATTTCT-ACATTCTGGAA
* *
1909050 TCTATGGTATCGATACTTTCCTT
65 TCCATGGTATCAATACTTTCCTT
1909073 TTTGGTATCG
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
93 1 0.01
94 52 0.69
95 22 0.29
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (95 bp):
GATACTTCTATACTATGGTACCGATACTCCCTTTCAGTATCAATACCATTTCTACATTCTGGAAT
CCATGGTATCAATACTTTCCTTCTAGTACT
Found at i:1909099 original size:17 final size:17
Alignment explanation
Indices: 1909077--1909120 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
1909067 TTCCTTTTTG
1909077 GTATCGATACCCTATCA
1 GTATCGATACCCTATCA
1909094 GTATCGATACCCTATCA
1 GTATCGATACCCTATCA
1909111 GTATCGATAC
1 GTATCGATAC
1909121 TAATTACATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (17 bp):
GTATCGATACCCTATCA
Found at i:1910035 original size:23 final size:23
Alignment explanation
Indices: 1909986--1910061 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 23
1909976 GTACGCGGTC
* * **
1909986 CTTCGGGAAAATTCTACGTGGTG
1 CTTCGGGACATTTCTACGTGGCA
*
1910009 CTTCGGGACATTTCTATGTGGCA
1 CTTCGGGACATTTCTACGTGGCA
* *
1910032 CTTCTGTG-CATTTTCTACGCGGCA
1 CTTC-GGGACA-TTTCTACGTGGCA
1910056 CTTCGG
1 CTTCGG
1910062 TGCAATTTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
23 25 0.60
24 17 0.40
ACGTcount: A:0.16, C:0.24, G:0.26, T:0.34
Consensus pattern (23 bp):
CTTCGGGACATTTCTACGTGGCA
Found at i:1910055 original size:24 final size:24
Alignment explanation
Indices: 1910019--1910065 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1910009 CTTCGGGACA
* * *
1910019 TTTCTATGTGGCACTTCTGTGCAT
1 TTTCTACGCGGCACTTCGGTGCAT
1910043 TTTCTACGCGGCACTTCGGTGCA
1 TTTCTACGCGGCACTTCGGTGCA
1910066 ATTTATACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.38
Consensus pattern (24 bp):
TTTCTACGCGGCACTTCGGTGCAT
Found at i:1918233 original size:16 final size:17
Alignment explanation
Indices: 1918212--1918244 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1918202 CCCATAGCCA
1918212 AGTTAGGTT-TTCTTTG
1 AGTTAGGTTATTCTTTG
*
1918228 AGTTAGTTTATTCTTTG
1 AGTTAGGTTATTCTTTG
1918245 GTTTATGGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.15, C:0.06, G:0.21, T:0.58
Consensus pattern (17 bp):
AGTTAGGTTATTCTTTG
Found at i:1919286 original size:54 final size:53
Alignment explanation
Indices: 1919201--1919589 Score: 440
Period size: 54 Copynumber: 7.2 Consensus size: 53
1919191 CTATGTGTAC
1919201 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAAC-ATCCG
1 TATAGGCACTAAGTGTGCAACCCAC-AAATTCATCATATGTTGATGAACGA-CCG
* *
1919255 TATAGGCACTAAGTTTGCAACCCACATAATTCATCATATGTTGATGAATGACCG
1 TATAGGCACTAAGTGTGCAACCCACA-AATTCATCATATGTTGATGAACGACCG
* * * * ***
1919309 TATAGGCACTAAGTGTGTAACCCACATAATTAATCATATGTTCATGAACAATTA
1 TATAGGCACTAAGTGTGCAACCCACA-AATTCATCATATGTTGATGAACGACCG
* **
1919363 TATAGTCACTAAGTGTGCAACCCATGGAATTCATCATATGTTGATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCA-CAAATTCATCATATGTTGATGAACGACCG
* * * * *
1919417 TATAGACACTAAGTGTGTAACACACGAAATTTATCATTTGTTGATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCAC-AAATTCATCATATGTTGATGAACGACCG
* * * * *
1919471 TACATGCACTAACTATGCAACCCACTGAATTCATCATATGTTGATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCAC-AAATTCATCATATGTTGATGAACGACCG
* * * *
1919525 TATCA-ACACTAAGTGTGCAACCCATGAAATTCATAATATGTTTATGAACGACCG
1 TAT-AGGCACTAAGTGTGCAACCCA-CAAATTCATCATATGTTGATGAACGACCG
*
1919579 TATCGGCACTA
1 TATAGGCACTA
1919590 TGTATGCATC
Statistics
Matches: 279, Mismatches: 49, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
53 1 0.00
54 276 0.99
55 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (53 bp):
TATAGGCACTAAGTGTGCAACCCACAAATTCATCATATGTTGATGAACGACCG
Found at i:1930834 original size:20 final size:20
Alignment explanation
Indices: 1930809--1930860 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1930799 TCCTTCAATG
1930809 TGCATCGATGCACAAGGCCA
1 TGCATCGATGCACAAGGCCA
*
1930829 TGCATCGATGTACAAGGCCA
1 TGCATCGATGCACAAGGCCA
1930849 TGCATCGATGCA
1 TGCATCGATGCA
1930861 TCCATCGAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.29, C:0.27, G:0.25, T:0.19
Consensus pattern (20 bp):
TGCATCGATGCACAAGGCCA
Found at i:1932463 original size:12 final size:12
Alignment explanation
Indices: 1932446--1932475 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
1932436 TAAGGGGGAG
1932446 TAATTTAAAAAT
1 TAATTTAAAAAT
1932458 TAATTTAAAAAT
1 TAATTTAAAAAT
1932470 TAATTT
1 TAATTT
1932476 TTAAAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TAATTTAAAAAT
Found at i:1932807 original size:20 final size:20
Alignment explanation
Indices: 1932778--1932815 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1932768 TTTCAAAGGA
1932778 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
1932798 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
1932816 GAATAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:1932895 original size:65 final size:64
Alignment explanation
Indices: 1932778--1932985 Score: 190
Period size: 65 Copynumber: 3.2 Consensus size: 64
1932768 TTTCAAAGGA
* * ** **
1932778 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CAATGAATAAATTG-AACATCGAATGCATT
1 ATGCATCGATGCA-CAAGCCATGCATCGATGCACTC-A-GGCTATTTTGAAACATCGAATGCATT
*
1932841 TT
63 TC
* * *
1932843 ATGCATCGATGCACATA-CCATGCATCGATGCACTCAGGGT-TTTATGAAAACATCAAATACATT
1 ATGCATCGATGCACA-AGCCATGCATCGATGCACTCAGGCTATTT-TG-AAACATCGAATGCATT
*
1932906 TG
63 TC
* * * *
1932908 ATGCATCGATACACAAGTCATGCATCGATGCACTTAGGCTATTTTGAAACATCGAATGCACTTC
1 ATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTC
*
1932972 ATGAATCGATGCAC
1 ATGCATCGATGCAC
1932986 TCTTAGTGCA
Statistics
Matches: 118, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 46 0.39
65 64 0.54
66 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (64 bp):
ATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTC
Found at i:1935205 original size:54 final size:54
Alignment explanation
Indices: 1934864--1935185 Score: 457
Period size: 54 Copynumber: 6.0 Consensus size: 54
1934854 CTACGTGTAC
* * *
1934864 TATAGGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCA
*
1934918 TATAGGCACTAAGTATG-AACCCCACGAAATTCATCATATGTTGATGAACGACCA
1 TATAGGCACTAAGTGTGCAA-CCCACGAAATTCATCATATGTTGATGAACGACCA
* *
1934972 TATAGGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACGATCA
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCA
* * * * *
1935026 TATAGGCACTAAATGTGCAACCTATGGAATTCATCATATGTTGATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCA
* * * *
1935080 TATAGGCACTAAGTGTACAACCCATGAAATTCATAATATGTTAATGAACGACCA
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCA
* * * *
1935134 TATCGGCACTAAGTGTGCGACCCACGAAATTCATAATATGTTTATGAACGAC
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGAC
1935186 TGTATCGACA
Statistics
Matches: 242, Mismatches: 24, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
53 2 0.01
54 238 0.98
55 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCA
Found at i:1935224 original size:108 final size:107
Alignment explanation
Indices: 1934864--1935224 Score: 393
Period size: 108 Copynumber: 3.3 Consensus size: 107
1934854 CTACGTGTAC
*** * * *
1934864 TATAGGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCGTATAGGCACTA
1 TATAGGCACTAAGTGTGCAA-CCAATAAATTCATAATATGTTGATGAACGACCATATAGGCACTA
* *
1934929 AGTATG-AACCCCACGAAATTCATCATATGTTGATGAACGACCA
65 AGTGTGCAA-CCCACGAAATTCATCATATGTTGATGAACGACCG
*** * *
1934972 TATAGGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACGATCATATAGGCACTA
1 TATAGGCACTAAGTGTGCAA-CCAATAAATTCATAATATGTTGATGAACGACCATATAGGCACTA
* * * *
1935037 AATGTGCAACCTATGGAATTCATCATATGTTGATGAACGACCG
65 AGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
* * * *
1935080 TATAGGCACTAAGTGTACAACCCATGAAATTCATAATATGTTAATGAACGACCATATCGGCACTA
1 TATAGGCACTAAGTGTGCAACCAAT-AAATTCATAATATGTTGATGAACGACCATATAGGCACTA
* * * *
1935145 AGTGTGCGACCCACGAAATTCATAATATGTTTATGAACGACTG
65 AGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
* * * *
1935188 TATCGACACTATGTGTGCATCTCAAATAAATT-ATAAT
1 TATAGGCACTAAGTGTGCAAC-C-AATAAATTCATAAT
1935225 GATTTGAAAA
Statistics
Matches: 217, Mismatches: 32, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
107 2 0.01
108 205 0.94
109 8 0.04
110 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (107 bp):
TATAGGCACTAAGTGTGCAACCAATAAATTCATAATATGTTGATGAACGACCATATAGGCACTAA
GTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
Done.