Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 6 of 332
Found at i:1763182 original size:30 final size:30
Alignment explanation
Indices: 1763146--1763203 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
1763136 CCTCGACTCT
* *
1763146 AACTTTTTCAAAATTATAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
1763176 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
1763204 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:1768939 original size:22 final size:22
Alignment explanation
Indices: 1768914--1768956 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1768904 TTTTCAAATT
* *
1768914 TTTTTTTCGTTTCTTATTCTTC
1 TTTTTATCCTTTCTTATTCTTC
*
1768936 TTTTTATCCTTTCTTCTTCTT
1 TTTTTATCCTTTCTTATTCTT
1768957 ATTCTTCTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTTTATCCTTTCTTATTCTTC
Found at i:1786590 original size:29 final size:28
Alignment explanation
Indices: 1786514--1786590 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 28
1786504 CTAACAATTC
*
1786514 AGTGACTAAAATGCTACAACATGTTAACATA
1 AGTGACTAAAATG-T--AACATGTTAAAATA
*
1786545 AGTGACTAAAACT-TAACATTTTAAAAATA
1 AGTGACTAAAA-TGTAACATGTT-AAAATA
*
1786574 TGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
1786591 CCGAGGGATA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
28 8 0.20
29 19 0.47
30 1 0.03
31 11 0.28
32 1 0.03
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.29
Consensus pattern (28 bp):
AGTGACTAAAATGTAACATGTTAAAATA
Found at i:1793967 original size:185 final size:185
Alignment explanation
Indices: 1793655--1794025 Score: 672
Period size: 185 Copynumber: 2.0 Consensus size: 185
1793645 CTTATTAAAT
1793655 AATGAAAAAACAAATAAAAAAACATATAAAACTTAAGATAATACGAGTCCAAACCGACTCATGAA
1 AATGAAAAAACAAATAAAAAAACATATAAAACTTAAGATAATACGAGTCCAAACCGACTCATGAA
* *
1793720 ATTATTTATTATTCTTAAATTCTCAAAATAGAAACAGATTAATAAGTCAACGAAGAGCTACCCAC
66 ATTATTTATTATTCTTAAATTCTCAAAACAGAAACAGATTAAGAAGTCAACGAAGAGCTACCCAC
*
1793785 TTTTTAAAAGAAACTGTCGGTGGTCGGTGGTGTTTCAACGATGATAGGCACTGTC
131 TTTTTAAAAGAAACTGTCGGTGGCCGGTGGTGTTTCAACGATGATAGGCACTGTC
1793840 AATGAAAAAACAAATAAAAAAACATATAAAACTTAAGATAATACGAGTCCAAACCGACTCATGAA
1 AATGAAAAAACAAATAAAAAAACATATAAAACTTAAGATAATACGAGTCCAAACCGACTCATGAA
* *
1793905 ATTATTTATTATT-TTGAAATTCTCAAAACAGGAACAGATTAAGAAGTCAACGAAGAGCTACCCG
66 ATTATTTATTATTCTT-AAATTCTCAAAACAGAAACAGATTAAGAAGTCAACGAAGAGCTACCCA
*
1793969 CTTTTTAAAAGAAACTGTTGGTGGCCGGTGGTGTTTCAACGATGATAGGCACTGTC
130 CTTTTTAAAAGAAACTGTCGGTGGCCGGTGGTGTTTCAACGATGATAGGCACTGTC
1794025 A
1 A
1794026 TTTGTCTAAC
Statistics
Matches: 179, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
184 2 0.01
185 177 0.99
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (185 bp):
AATGAAAAAACAAATAAAAAAACATATAAAACTTAAGATAATACGAGTCCAAACCGACTCATGAA
ATTATTTATTATTCTTAAATTCTCAAAACAGAAACAGATTAAGAAGTCAACGAAGAGCTACCCAC
TTTTTAAAAGAAACTGTCGGTGGCCGGTGGTGTTTCAACGATGATAGGCACTGTC
Found at i:1795755 original size:25 final size:25
Alignment explanation
Indices: 1795727--1795811 Score: 66
Period size: 25 Copynumber: 3.3 Consensus size: 25
1795717 GTGAGTACGA
1795727 AATTAAAAAAAATAGAAATATTAGT
1 AATTAAAAAAAATAGAAATATTAGT
*
1795752 AATTAAATTAAAAATA-AAATTATTTAAT
1 AATTAAA--AAAAATAGAAA-TA-TTAGT
** * *
1795780 AATT-AATTAAATAGAATTAACTAGT
1 AATTAAAAAAAATAGAAAT-ATTAGT
1795805 AATTAAA
1 AATTAAA
1795812 CTGATTAAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
25 20 0.43
26 8 0.17
27 11 0.23
28 8 0.17
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (25 bp):
AATTAAAAAAAATAGAAATATTAGT
Found at i:1795764 original size:28 final size:28
Alignment explanation
Indices: 1795733--1795790 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
1795723 ACGAAATTAA
*
1795733 AAAAAATAGAAA-TA-TTAGTAATTAAATT
1 AAAAAATA-AAATTATTTAATAATT-AATT
1795761 -AAAAATAAAATTATTTAATAATTAATT
1 AAAAAATAAAATTATTTAATAATTAATT
1795788 AAA
1 AAA
1795791 TAGAATTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
26 3 0.12
27 13 0.50
28 10 0.38
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (28 bp):
AAAAAATAAAATTATTTAATAATTAATT
Found at i:1799873 original size:17 final size:17
Alignment explanation
Indices: 1799853--1799908 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 17
1799843 TTGTTTTGAG
*
1799853 AATTTAATATTTTTTCA
1 AATTTAATATTTTTTAA
1799870 AA-TTAAT-TTTTTTAA
1 AATTTAATATTTTTTAA
*
1799885 ATATTTAATTATTTAATTAA
1 A-ATTTAA-TATTT-TTTAA
1799905 AATT
1 AATT
1799909 ATATGATGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 8 0.25
16 6 0.19
17 6 0.19
18 1 0.03
19 6 0.19
20 5 0.16
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
AATTTAATATTTTTTAA
Found at i:1807198 original size:23 final size:24
Alignment explanation
Indices: 1807154--1807203 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
1807144 TCATATATAT
*
1807154 AATATTTTCTATATTAATTTTTCA
1 AATATTTTCTATATTAAATTTTCA
*
1807178 AATATTTT-TATTTTAAATTTTCA
1 AATATTTTCTATATTAAATTTTCA
1807201 AAT
1 AAT
1807204 CAAATTCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (24 bp):
AATATTTTCTATATTAAATTTTCA
Found at i:1807226 original size:38 final size:38
Alignment explanation
Indices: 1807183--1807255 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 38
1807173 TTTCAAATAT
* * *
1807183 TTTTATTTTAAATTTTCAAATCAAATTCTATTAATTTC
1 TTTTATATTAAATTTTCAAAACAAATTATATTAATTTC
** *
1807221 TTTTATATTATTTTTTCAAAACAATTTATATTAAT
1 TTTTATATTAAATTTTCAAAACAAATTATATTAAT
1807256 GTTTTATATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 29 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (38 bp):
TTTTATATTAAATTTTCAAAACAAATTATATTAATTTC
Found at i:1812299 original size:18 final size:18
Alignment explanation
Indices: 1812276--1812332 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 18
1812266 CCCAACTACT
* *
1812276 GTATACGTGAACAGTATC
1 GTATACGTGAATAGTACC
* *
1812294 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
1812312 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
1812330 GTA
1 GTA
1812333 AACGGTCGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:1820032 original size:23 final size:23
Alignment explanation
Indices: 1820017--1820059 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1820007 TATGTATATG
1820017 CATATAATAAAAATATATAATGA
1 CATATAATAAAAATATATAATGA
* *
1820040 TATATAATAATAATA-ATAAT
1 CATATAATAAAAATATATAAT
1820060 AATATGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
CATATAATAAAAATATATAATGA
Found at i:1820042 original size:10 final size:10
Alignment explanation
Indices: 1820018--1820060 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
1820008 ATGTATATGC
*
1820018 ATATAATAAAA
1 ATAT-ATAATA
*
1820029 ATATATAATG
1 ATATATAATA
1820039 ATATATAATA
1 ATATATAATA
1820049 ATA-ATAATA
1 ATATATAATA
1820058 ATA
1 ATA
1820061 ATATGAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 9 0.31
10 16 0.55
11 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (10 bp):
ATATATAATA
Found at i:1820051 original size:3 final size:3
Alignment explanation
Indices: 1820020--1820063 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
1820010 GTATATGCAT
* *
1820020 ATA ATA AAA ATA TATA ATG ATA TATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
1820064 TGAAAATACA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
3 29 0.83
4 6 0.17
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1820564 original size:21 final size:23
Alignment explanation
Indices: 1820540--1820585 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1820530 AAAAAAAACA
1820540 GGAGAGGAG-AA-GAGAGAAAAG
1 GGAGAGGAGAAAGGAGAGAAAAG
*
1820561 GGAGAGGAGAAAGGAGAGAAGAG
1 GGAGAGGAGAAAGGAGAGAAAAG
1820584 GG
1 GG
1820586 GCTGCCGGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
22 2 0.09
23 11 0.50
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (23 bp):
GGAGAGGAGAAAGGAGAGAAAAG
Found at i:1823395 original size:27 final size:27
Alignment explanation
Indices: 1823364--1823429 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 27
1823354 TGGTATATAA
1823364 ACATATAATAT-TAA-AAAAGATACATAT
1 ACATATAATATATAATAAAAGA-A-ATAT
*
1823391 ACATA-ATATATATAATAATAGAAATAT
1 ACATATA-ATATATAATAAAAGAAATAT
*
1823418 ATATATAATATA
1 ACATATAATATA
1823430 GTATCAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
26 1 0.03
27 22 0.67
28 5 0.15
29 5 0.15
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (27 bp):
ACATATAATATATAATAAAAGAAATAT
Found at i:1823403 original size:29 final size:29
Alignment explanation
Indices: 1823366--1823438 Score: 67
Period size: 29 Copynumber: 2.4 Consensus size: 29
1823356 GTATATAAAC
*
1823366 ATATAATATTAAAAAAGATACATATACATA
1 ATAT-ATATTAAAAAAGAAACATATACATA
* * *
1823396 ATATATA-TAATAATAGAAATATATATATA
1 ATATATATTAA-AAAAGAAACATATACATA
*
1823425 ATATAGTATCAAAA
1 ATATA-TATTAAAA
1823439 TATTTACATA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
28 3 0.09
29 22 0.63
30 8 0.23
31 2 0.06
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (29 bp):
ATATATATTAAAAAAGAAACATATACATA
Found at i:1823541 original size:17 final size:19
Alignment explanation
Indices: 1823509--1823545 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
1823499 AAATATACAC
1823509 ACATATATATATATTAAAA
1 ACATATATATATATTAAAA
1823528 ACATA-ATA-ATATTAAAA
1 ACATATATATATATTAAAA
1823545 A
1 A
1823546 TACGTACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 3 0.17
19 5 0.28
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
ACATATATATATATTAAAA
Found at i:1823620 original size:27 final size:26
Alignment explanation
Indices: 1823562--1823621 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
1823552 CATAGTATAT
1823562 ATATACATATAATATAGTTATTAAGA
1 ATATACATATAATATAGTTATTAAGA
*
1823588 AAATACATATAATATA-TAGTATTAAGA
1 ATATACATATAATATAGT--TATTAAGA
1823615 ATATACA
1 ATATACA
1823622 CAATACATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 1 0.03
26 15 0.50
27 14 0.47
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (26 bp):
ATATACATATAATATAGTTATTAAGA
Found at i:1823631 original size:27 final size:26
Alignment explanation
Indices: 1823560--1823639 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 26
1823550 TACATAGTAT
*
1823560 ATATATACATATAATATAGTTATTAAGA
1 ATATACACA-ATAATATAG-TATTAAGA
* *
1823588 AAATACA-TATAATATATAGTATTAAGA
1 ATATACACAAT-A-ATATAGTATTAAGA
*
1823615 ATATACACAATACATATGGTATTAA
1 ATATACACAATA-ATATAGTATTAA
1823640 AAAATATAGT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
26 2 0.05
27 27 0.64
28 13 0.31
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.35
Consensus pattern (26 bp):
ATATACACAATAATATAGTATTAAGA
Found at i:1823651 original size:15 final size:15
Alignment explanation
Indices: 1823628--1823657 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1823618 TACACAATAC
*
1823628 ATATGGTATTAAAAA
1 ATATAGTATTAAAAA
1823643 ATATAGTATTAAAAA
1 ATATAGTATTAAAAA
1823658 CATAATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (15 bp):
ATATAGTATTAAAAA
Found at i:1823718 original size:27 final size:25
Alignment explanation
Indices: 1823688--1823749 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 25
1823678 ATTGATTTTA
1823688 AAAAATAATATTAATAATAG-TAATAGT
1 AAAAATAATA--AATAATAGAT-ATAGT
1823715 AAAATACTAATAAATAATAGATATAGT
1 AAAA-A-TAATAAATAATAGATATAGT
*
1823742 AATAATAA
1 AAAAATAA
1823750 GAACGTATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
25 3 0.10
26 1 0.03
27 20 0.65
28 2 0.06
29 5 0.16
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (25 bp):
AAAAATAATAAATAATAGATATAGT
Found at i:1824161 original size:9 final size:9
Alignment explanation
Indices: 1824139--1824174 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
1824129 AACATTAAAG
1824139 TATATACATGA
1 TATATACA--A
1824150 TATATACAA
1 TATATACAA
1824159 TATATACAA
1 TATATACAA
1824168 TATATAC
1 TATATAC
1824175 GTATATTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 17 0.68
11 8 0.32
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (9 bp):
TATATACAA
Found at i:1825235 original size:22 final size:21
Alignment explanation
Indices: 1825200--1825241 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1825190 AGAGAGAGAG
1825200 AGAAAAAAATAAAAAACGAAAA
1 AGAAAAAAATAAAAAA-GAAAA
1825222 AGAAAGAAAA-AAAAAAGAAA
1 AGAAA-AAAATAAAAAAGAAA
1825242 TTTTGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (21 bp):
AGAAAAAAATAAAAAAGAAAA
Found at i:1825753 original size:27 final size:26
Alignment explanation
Indices: 1825723--1825775 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
1825713 GGTCTTTGTA
* *
1825723 TGGGCTGTTTGTTTATAAATTGGGTTT
1 TGGGCTG-TTGGTTATAAATGGGGTTT
* *
1825750 TGGGTTGTTGGTTGTAAATGGGGTTT
1 TGGGCTGTTGGTTATAAATGGGGTTT
1825776 GGATAATTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.13, C:0.02, G:0.36, T:0.49
Consensus pattern (26 bp):
TGGGCTGTTGGTTATAAATGGGGTTT
Found at i:1830095 original size:7 final size:7
Alignment explanation
Indices: 1830083--1830121 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
1830073 ATAAAATAAT
1830083 ATTTAAG
1 ATTTAAG
1830090 ATTTAAG
1 ATTTAAG
1830097 ATTTAAG
1 ATTTAAG
1830104 ATTTAAG
1 ATTTAAG
1830111 ATTTAAG
1 ATTTAAG
1830118 ATTT
1 ATTT
1830122 CAAAAATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (7 bp):
ATTTAAG
Found at i:1831824 original size:9 final size:9
Alignment explanation
Indices: 1831806--1832045 Score: 56
Period size: 9 Copynumber: 26.4 Consensus size: 9
1831796 ATTATAAATG
1831806 AAAA-TATA
1 AAAATTATA
1831814 AAAATTATA
1 AAAATTATA
* *
1831823 AAAAGTATT
1 AAAATTATA
1831832 AAAATTGA-A
1 AAAATT-ATA
** *
1831841 AATTTTATT
1 AAAATTATA
1831850 AAAA-TA-A
1 AAAATTATA
*
1831857 CAAA-TATA
1 AAAATTATA
*
1831865 TAAATTAT-
1 AAAATTATA
1831873 AAAATTATA
1 AAAATTATA
* *
1831882 AAATTTATG
1 AAAATTATA
* *
1831891 AAATTTATTT
1 AAAATTA-TA
*
1831901 AAAACTATA
1 AAAATTATA
1831910 GAAAATTATTTA
1 -AAAATTA--TA
*
1831922 AAATATCATA
1 AAA-ATTATA
1831932 AAAA-TATA
1 AAAATTATA
*
1831940 GAAATGTGCA-A
1 AAAAT-T--ATA
*
1831951 AAAAATATA
1 AAAATTATA
1831960 ACAAATT-TA
1 A-AAATTATA
*
1831969 AGAATTATA
1 AAAATTATA
* *
1831978 TAAATCATAA
1 AAAATTAT-A
* *
1831988 AAAAGTATT
1 AAAATTATA
**
1831997 TGAATTATGA
1 AAAATTAT-A
1832007 AAGAA--ATA
1 AA-AATTATA
1832015 AAAATT-TA
1 AAAATTATA
1832023 AAAATTATGA
1 AAAATTAT-A
1832033 AAATATT-TA
1 AAA-ATTATA
1832042 AAAA
1 AAAA
1832046 ATAGAAATTT
Statistics
Matches: 166, Mismatches: 40, Indels: 52
0.64 0.16 0.20
Matches are distributed among these distances:
7 7 0.04
8 41 0.25
9 65 0.39
10 35 0.21
11 12 0.07
12 6 0.04
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:1832058 original size:19 final size:19
Alignment explanation
Indices: 1832014--1832052 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
1832004 TGAAAGAAAT
*
1832014 AAAA-ATTTAAAAATTATG
1 AAAATATTTAAAAAATATG
1832032 AAAATATTTAAAAAATA-G
1 AAAATATTTAAAAAATATG
1832050 AAA
1 AAA
1832053 TTTATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (19 bp):
AAAATATTTAAAAAATATG
Found at i:1832539 original size:19 final size:19
Alignment explanation
Indices: 1832497--1832539 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1832487 ATGTTTTTGT
1832497 TATTTTAATATTTTTTGAA
1 TATTTTAATATTTTTTGAA
*
1832516 -CTTTTATATATTTTTT-AA
1 TATTTTA-ATATTTTTTGAA
1832534 TATTTT
1 TATTTT
1832540 TTACATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TATTTTAATATTTTTTGAA
Found at i:1832558 original size:29 final size:28
Alignment explanation
Indices: 1832499--1832561 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
1832489 GTTTTTGTTA
*
1832499 TTTTAATATTTTTTGAACTTTTATATATT
1 TTTTAATATTTTTT-AACATTTATATATT
1832528 TTTTAATATTTTTT-ACATTTATTATACTT
1 TTTTAATATTTTTTAACATTTA-TATA-TT
1832557 TTTTA
1 TTTTA
1832562 TGATTTTCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 6 0.19
28 4 0.13
29 21 0.68
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.67
Consensus pattern (28 bp):
TTTTAATATTTTTTAACATTTATATATT
Found at i:1832568 original size:10 final size:9
Alignment explanation
Indices: 1832499--1832568 Score: 52
Period size: 10 Copynumber: 7.3 Consensus size: 9
1832489 GTTTTTGTTA
*
1832499 TTTTAATAT
1 TTTTTATAT
1832508 TTTTTGA-ACT
1 TTTTT-ATA-T
*
1832518 TTTATATAT
1 TTTTTATAT
1832527 TTTTTAATAT
1 TTTTT-ATAT
*
1832537 TTTTTACAT
1 TTTTTATAT
*
1832546 TTATTATACT
1 TTTTTATA-T
1832556 TTTTTATGAT
1 TTTTTAT-AT
1832566 TTT
1 TTT
1832569 CTATCATTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
9 20 0.42
10 27 0.56
11 1 0.02
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (9 bp):
TTTTTATAT
Found at i:1832577 original size:30 final size:27
Alignment explanation
Indices: 1832499--1832577 Score: 70
Period size: 29 Copynumber: 2.7 Consensus size: 27
1832489 GTTTTTGTTA
* *
1832499 TTTTAATATTTTTTGAACTTTTATATATT
1 TTTTAATATTTTCT--ACATTTATATATT
*
1832528 TTTTAATATTTTTTACATTTATTATACTT
1 TTTTAATATTTTCTACATTTA-TATA-TT
1832557 TTTT-ATGATTTTCTATCATTT
1 TTTTAAT-ATTTTCTA-CATTT
1832578 CTATCGTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 6 0.14
28 6 0.14
29 27 0.61
30 5 0.11
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (27 bp):
TTTTAATATTTTCTACATTTATATATT
Found at i:1834091 original size:19 final size:19
Alignment explanation
Indices: 1834067--1834104 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
1834057 TCTATGAGTA
1834067 AGGTCTC-AGATTTAAGTTT
1 AGGTCTCGA-ATTTAAGTTT
1834086 AGGTCTCGAATTTAAGTTT
1 AGGTCTCGAATTTAAGTTT
1834105 TGTAGATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (19 bp):
AGGTCTCGAATTTAAGTTT
Found at i:1835657 original size:125 final size:125
Alignment explanation
Indices: 1835526--1835775 Score: 482
Period size: 125 Copynumber: 2.0 Consensus size: 125
1835516 TAAAACAGAA
1835526 AAAAAAAAATTGTTGAAAGCTCTTTAGTCCCCTTTAGGTGTTATACAAATGTAAGACTATTTGTA
1 AAAAAAAAATTGTTGAAAGCTCTTTAGTCCCCTTTAGGTGTTATACAAATGTAAGACTATTTGTA
* *
1835591 TAAAGGTTGTCTCTTCCCACTGTCATGGTTTAATTGATTACCAATCGAATGCGAGTTTGT
66 TAAAGGTTGTCTCTTCCCACTGTCATGGTTTAATTGATTAACAATCGAATGCAAGTTTGT
1835651 AAAAAAAAATTGTTGAAAGCTCTTTAGTCCCCTTTAGGTGTTATACAAATGTAAGACTATTTGTA
1 AAAAAAAAATTGTTGAAAGCTCTTTAGTCCCCTTTAGGTGTTATACAAATGTAAGACTATTTGTA
1835716 TAAAGGTTGTCTCTTCCCACTGTCATGGTTTAATTGATTAACAATCGAATGCAAGTTTGT
66 TAAAGGTTGTCTCTTCCCACTGTCATGGTTTAATTGATTAACAATCGAATGCAAGTTTGT
1835776 GTATTTTTTG
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 123 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (125 bp):
AAAAAAAAATTGTTGAAAGCTCTTTAGTCCCCTTTAGGTGTTATACAAATGTAAGACTATTTGTA
TAAAGGTTGTCTCTTCCCACTGTCATGGTTTAATTGATTAACAATCGAATGCAAGTTTGT
Found at i:1848694 original size:17 final size:18
Alignment explanation
Indices: 1848664--1848705 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
1848654 TTTTATAATT
*
1848664 TTGATAATAAAATTTTAA
1 TTGATAATAAAATTATAA
*
1848682 TTGA-AATATAATTATAA
1 TTGATAATAAAATTATAA
1848699 TT-ATAAT
1 TTGATAAT
1848706 CATATTATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 1 0.05
17 16 0.76
18 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (18 bp):
TTGATAATAAAATTATAA
Found at i:1850235 original size:2 final size:2
Alignment explanation
Indices: 1850224--1850253 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1850214 TCAACACCAA
1850224 TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1850254 ATTTTGTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1853172 original size:82 final size:80
Alignment explanation
Indices: 1853011--1853178 Score: 291
Period size: 82 Copynumber: 2.1 Consensus size: 80
1853001 TACTGTGTTG
* *
1853011 TAGTGATCACATCATGCATGCATTCATAACTACCAGCATAGACAAACACTATGGTAAGGCATTAA
1 TAGTGATCACATCATGCATGCATACATAACTACCAGCATAGAAAAACACTATGGTAAGGCATTAA
1853076 ACAAAATGGTAAACT
66 ACAAAATGGTAAACT
*
1853091 TAGTGATCACATCATGCATGCATACATGACTACCAGCATAGAAAAAAACACTATGGTAAGGCATT
1 TAGTGATCACATCATGCATGCATACATAACTACCAGCATAG--AAAAACACTATGGTAAGGCATT
1853156 AAACAAAATGGTAAACT
64 AAACAAAATGGTAAACT
1853173 TAGTGA
1 TAGTGA
1853179 CCTTTTTTTC
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
80 39 0.47
82 44 0.53
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.23
Consensus pattern (80 bp):
TAGTGATCACATCATGCATGCATACATAACTACCAGCATAGAAAAACACTATGGTAAGGCATTAA
ACAAAATGGTAAACT
Found at i:1857038 original size:40 final size:40
Alignment explanation
Indices: 1856981--1857060 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
1856971 TAGGACATCT
1856981 AAATTAACATTTAAAAAAATA-AAAAAAATTAAAAATATAA
1 AAATTAACATTTAAAAAAATACAAAAAAATTAAAAA-ATAA
* * *
1857021 AAATTATAC-TTTTAAAAAATACATAAAACTTAAAAAATAA
1 AAATTA-ACATTTAAAAAAATACAAAAAAATTAAAAAATAA
1857061 GGAAAACCCC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 21 0.60
41 14 0.40
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (40 bp):
AAATTAACATTTAAAAAAATACAAAAAAATTAAAAAATAA
Found at i:1860524 original size:16 final size:15
Alignment explanation
Indices: 1860505--1860577 Score: 56
Period size: 16 Copynumber: 4.5 Consensus size: 15
1860495 AAATTACAAT
*
1860505 AAATAATAAATTTATA
1 AAATAATAAATAT-TA
*
1860521 AAATTATTAAATATTA
1 AAA-TAATAAATATTA
1860537 AAATAATATAATATTA
1 AAATAATA-AATATTA
* * *
1860553 ATATTTAAAAAAAATTA
1 A-A-ATAATAAATATTA
1860570 AAATAATA
1 AAATAATA
1860578 TGGGCAGTCC
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
15 8 0.18
16 17 0.38
17 16 0.36
18 4 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATAATAAATATTA
Found at i:1870962 original size:37 final size:37
Alignment explanation
Indices: 1870912--1870987 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
1870902 ATCATTTGGT
1870912 CTTGGAATCAAATTCCAATCTAATAGGATCAATATTC
1 CTTGGAATCAAATTCCAATCTAATAGGATCAATATTC
* * *
1870949 CTTGGAATCAAATTCCAGTTTAATAGGATCAATGTTC
1 CTTGGAATCAAATTCCAATCTAATAGGATCAATATTC
1870986 CT
1 CT
1870988 ACACCAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (37 bp):
CTTGGAATCAAATTCCAATCTAATAGGATCAATATTC
Found at i:1878201 original size:28 final size:28
Alignment explanation
Indices: 1878156--1878225 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
1878146 AAAATCGACA
* *
1878156 ATATACAAATCAAT-TTAAAAT-AGATGAT
1 ATATACATAT-AATATTAAAATAAG-TAAT
1878184 ATATACATATAATATTAAAATAAGTAAT
1 ATATACATATAATATTAAAATAAGTAAT
*
1878212 ATATATATATAATA
1 ATATACATATAATA
1878226 AATACTATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 3 0.08
28 32 0.86
29 2 0.05
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (28 bp):
ATATACATATAATATTAAAATAAGTAAT
Found at i:1878339 original size:26 final size:24
Alignment explanation
Indices: 1878308--1878377 Score: 72
Period size: 26 Copynumber: 2.9 Consensus size: 24
1878298 TAAGTTGTAT
1878308 AAGACAATTTTAAATAAATATACGTA
1 AAGACAATTTTAAATAAATATA--TA
* *
1878334 AAGACAAGTTTAGGAT-AATATATA
1 AAGACAATTTTA-AATAAATATATA
*
1878358 AAGA-AATTTAAAATAAATAT
1 AAGACAATTTTAAATAAATAT
1878378 TAAGAGGCTC
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 2 0.05
23 10 0.27
24 6 0.16
26 17 0.46
27 2 0.05
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.30
Consensus pattern (24 bp):
AAGACAATTTTAAATAAATATATA
Found at i:1882640 original size:27 final size:27
Alignment explanation
Indices: 1882602--1882655 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
1882592 TAGATTCTTC
**
1882602 CTAATATCTTCTACATGGAGTATATTG
1 CTAATATCTTCTACATACAGTATATTG
*
1882629 CTAATATCTTCTGCATACAGTATATTG
1 CTAATATCTTCTACATACAGTATATTG
1882656 TTAAGGGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (27 bp):
CTAATATCTTCTACATACAGTATATTG
Found at i:1889398 original size:5 final size:5
Alignment explanation
Indices: 1889388--1889424 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
1889378 TAGGAAAATC
1889388 TTATT TTATT TTA-T TTATTT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTA-TT TTATT TTATT TTATT TT
1889425 TGATTTTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.13
5 22 0.73
6 4 0.13
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:1889411 original size:15 final size:15
Alignment explanation
Indices: 1889391--1889433 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 15
1889381 GAAAATCTTA
1889391 TTTTATTTTATTTAT
1 TTTTATTTTATTTAT
1889406 TTTTATTTTATTTTAT
1 TTTTATTTTA-TTTAT
1889422 TTTTGATTTTAT
1 TTTT-ATTTTAT
1889434 ATTAAATTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.38
16 10 0.38
17 6 0.23
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTTATTTTATTTAT
Found at i:1889432 original size:12 final size:11
Alignment explanation
Indices: 1889391--1889433 Score: 54
Period size: 10 Copynumber: 4.0 Consensus size: 11
1889381 GAAAATCTTA
1889391 TTTTATTTTAT
1 TTTTATTTTAT
*
1889402 TTAT-TTTTA-
1 TTTTATTTTAT
1889411 TTTTATTTTAT
1 TTTTATTTTAT
1889422 TTTTGATTTTAT
1 TTTT-ATTTTAT
1889434 ATTAAATTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 3 0.11
10 10 0.37
11 7 0.26
12 7 0.26
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:1894467 original size:21 final size:21
Alignment explanation
Indices: 1894442--1894483 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1894432 TCATATTTAA
1894442 AGTTTAAATATGTATGTTTCT
1 AGTTTAAATATGTATGTTTCT
1894463 AGTTTAAATATGTATGTTTCT
1 AGTTTAAATATGTATGTTTCT
1894484 CTTTGAAAAT
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:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (21 bp):
AGTTTAAATATGTATGTTTCT
Found at i:1895131 original size:17 final size:18
Alignment explanation
Indices: 1895109--1895158 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
1895099 TTTATATTTT
1895109 ATTTTTATATTTAATTAA
1 ATTTTTATATTTAATTAA
* *
1895127 TTTTTTTTATTT-ATTAA
1 ATTTTTATATTTAATTAA
* *
1895144 AATTTTATATATAAT
1 ATTTTTATATTTAAT
1895159 GAACTTAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTTATATTTAATTAA
Found at i:1896834 original size:19 final size:19
Alignment explanation
Indices: 1896795--1896834 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
1896785 AAAAATAATT
1896795 TAAAAAATTCATATTTTTTA
1 TAAAAAATT-ATATTTTTTA
1896815 TAAAAAATT-TATTTTATTA
1 TAAAAAATTATATTTT-TTA
1896834 T
1 T
1896835 TTGGAGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 4 0.21
20 9 0.47
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TAAAAAATTATATTTTTTA
Found at i:1904632 original size:15 final size:16
Alignment explanation
Indices: 1904609--1904646 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
1904599 TTTAAAAATT
* *
1904609 ATAAAAAAATCACAAA
1 ATAAAAAATTCAAAAA
1904625 ATAAAAAATTCAAAAA
1 ATAAAAAATTCAAAAA
1904641 ATAAAA
1 ATAAAA
1904647 TAAAAATTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (16 bp):
ATAAAAAATTCAAAAA
Found at i:1909603 original size:17 final size:17
Alignment explanation
Indices: 1909581--1909614 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1909571 TACAATTTAC
1909581 TCTTTAATCTAATATAA
1 TCTTTAATCTAATATAA
1909598 TCTTTAATCTAATATAA
1 TCTTTAATCTAATATAA
1909615 AGGGATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (17 bp):
TCTTTAATCTAATATAA
Found at i:1916441 original size:14 final size:15
Alignment explanation
Indices: 1916410--1916449 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
1916400 AAAAAATATT
* *
1916410 AAAACTAAATTTCTA
1 AAAATTAAATTACTA
1916425 AAAATTAAATTAC-A
1 AAAATTAAATTACTA
1916439 AAAATTAAATT
1 AAAATTAAATT
1916450 TAATGTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATTAAATTACTA
Found at i:1918676 original size:25 final size:27
Alignment explanation
Indices: 1918648--1918715 Score: 79
Period size: 25 Copynumber: 2.6 Consensus size: 27
1918638 AAAATTGGTA
1918648 AGACATTTTCCATTCT-TCTCT-A-AGC
1 AGACATTTTCCATTCTCT-TCTAACAGC
**
1918673 AGACATTTTCTGTTCTCTTCTAAGCAGC
1 AGACATTTTCCATTCTCTTCTAA-CAGC
1918701 AGACATTTTCCATTC
1 AGACATTTTCCATTC
1918716 CTCAAAGCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 17 0.49
26 2 0.06
28 16 0.46
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.40
Consensus pattern (27 bp):
AGACATTTTCCATTCTCTTCTAACAGC
Found at i:1921123 original size:15 final size:16
Alignment explanation
Indices: 1921098--1921130 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
1921088 ATTTTTGAAC
1921098 TTTCAATGCTTTCATT
1 TTTCAATGCTTTCATT
1921114 TTTC-ATGCTTTCATT
1 TTTCAATGCTTTCATT
1921129 TT
1 TT
1921131 AAGTGGTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.15, C:0.18, G:0.06, T:0.61
Consensus pattern (16 bp):
TTTCAATGCTTTCATT
Found at i:1922709 original size:35 final size:36
Alignment explanation
Indices: 1922661--1922729 Score: 131
Period size: 35 Copynumber: 1.9 Consensus size: 36
1922651 ATTTGTTAGA
1922661 TATTGATTATGTTTTAAGCTTGTTGGATATTGAATT
1 TATTGATTATGTTTTAAGCTTGTTGGATATTGAATT
1922697 TATT-ATTATGTTTTAAGCTTGTTGGATATTGAA
1 TATTGATTATGTTTTAAGCTTGTTGGATATTGAA
1922730 ATGGTTGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (36 bp):
TATTGATTATGTTTTAAGCTTGTTGGATATTGAATT
Found at i:1923791 original size:71 final size:72
Alignment explanation
Indices: 1923672--1923810 Score: 244
Period size: 71 Copynumber: 1.9 Consensus size: 72
1923662 TTGATACATT
*
1923672 TATGTGGTGTAATATTATGCACTTGGACAATGTTCTTACTATGTGGTGTACCATTAATTATGGAT
1 TATGTGGTGTAATATTATGCACTTAGACAATGTTCTTACTATGTGGTGTACCATTAATTATGGAT
1923737 TTGGATA
66 TTGGATA
* *
1923744 TATGTGGTGTAATATTATGCAC-TAGACAATGTTGTTACTATGTGGTGTACCATTAATTATGTAT
1 TATGTGGTGTAATATTATGCACTTAGACAATGTTCTTACTATGTGGTGTACCATTAATTATGGAT
1923808 TTG
66 TTG
1923811 AATAATATTA
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
71 42 0.66
72 22 0.34
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (72 bp):
TATGTGGTGTAATATTATGCACTTAGACAATGTTCTTACTATGTGGTGTACCATTAATTATGGAT
TTGGATA
Found at i:1924024 original size:14 final size:14
Alignment explanation
Indices: 1924005--1924032 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1923995 ACAATTTATT
1924005 AATATATATTAATA
1 AATATATATTAATA
1924019 AATATATATTAATA
1 AATATATATTAATA
1924033 TATGTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATATATATTAATA
Found at i:1924172 original size:34 final size:35
Alignment explanation
Indices: 1924119--1924185 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
1924109 CAAACACCAG
*
1924119 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGA
*
1924154 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
1924186 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGA
Found at i:1924177 original size:14 final size:14
Alignment explanation
Indices: 1924154--1924193 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
1924144 ACAGAAAAGA
*
1924154 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
1924168 AAATCATTTTACGG
1 AAAACATTTTACAG
1924182 AAAACATTTTAC
1 AAAACATTTTAC
1924194 TGCCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:1925420 original size:9 final size:9
Alignment explanation
Indices: 1925390--1925430 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
1925380 ATAAGTATAA
1925390 AATTAACCG
1 AATTAACCG
*
1925399 AATT-ACCTA
1 AATTAACC-G
1925408 AATTAACCG
1 AATTAACCG
1925417 AATTAACCG
1 AATTAACCG
1925426 AATTA
1 AATTA
1925431 TTTGTATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 3 0.11
9 22 0.79
10 3 0.11
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:1925464 original size:5 final size:6
Alignment explanation
Indices: 1925449--1925489 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
1925439 AAATTATATT
*
1925449 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
1925490 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:1930063 original size:17 final size:19
Alignment explanation
Indices: 1930041--1930075 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1930031 GATATGATAC
1930041 TAAAAT-TAT-TAAAAAAT
1 TAAAATATATATAAAAAAT
1930058 TAAAATATATATAAAAAA
1 TAAAATATATATAAAAAA
1930076 ATCAGGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATATATATAAAAAAT
Found at i:1930374 original size:23 final size:22
Alignment explanation
Indices: 1930331--1930388 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
1930321 AAAAGGTATC
* *
1930331 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
1930352 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
1930375 TGCATATCATATCT
1 TACAAATCATATCT
1930389 AAGATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:1930402 original size:22 final size:19
Alignment explanation
Indices: 1930358--1930405 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
1930348 AGATTACAAA
1930358 ATCATATCTTCTAAGATTG
1 ATCATATCTTCTAAGATTG
1930377 --CATATCATATCTAAGATTG
1 ATCATATC-T-TCTAAGATTG
1930396 TATCATATCT
1 -ATCATATCT
1930406 AAGATTGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
17 6 0.25
18 1 0.04
19 10 0.42
21 1 0.04
22 6 0.25
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (19 bp):
ATCATATCTTCTAAGATTG
Found at i:1930418 original size:14 final size:15
Alignment explanation
Indices: 1930381--1930418 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
1930371 AGATTGCATA
1930381 TCATATCTAAGATTG
1 TCATATCTAAGATTG
1930396 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
1930413 -CATATC
1 TCATATC
1930419 ACATCTAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
17 15 0.71
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:1930446 original size:36 final size:36
Alignment explanation
Indices: 1930370--1930447 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
1930360 CATATCTTCT
* *
1930370 AAGATTGCATATCATATCTAAGATTGTATCATATCT
1 AAGATTGCATATCACATCTAAGATTGTATCATATCG
1930406 AAGATTGCATATCACATCTAAGATTGCATATCAT-T-G
1 AAGATTGCATATCACATCTAAGATTG--TATCATATCG
1930442 AAGATT
1 AAGATT
1930448 ATATTTCAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
36 31 0.82
37 1 0.03
38 6 0.16
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (36 bp):
AAGATTGCATATCACATCTAAGATTGTATCATATCG
Found at i:1930447 original size:17 final size:19
Alignment explanation
Indices: 1930367--1930439 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
1930357 AATCATATCT
1930367 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
1930386 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
1930403 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
1930422 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
1930440 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
17 17 0.34
19 33 0.66
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:1930595 original size:21 final size:20
Alignment explanation
Indices: 1930558--1930596 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1930548 TTGGACTTCG
**
1930558 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
1930578 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
1930597 TTTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:1930877 original size:44 final size:44
Alignment explanation
Indices: 1930806--1930934 Score: 145
Period size: 45 Copynumber: 2.9 Consensus size: 44
1930796 ATTTTTGATC
* *
1930806 TGCTTCCCGTCTAATACAGAGACGCCAAATTTGCTTCTTCAATCT
1 TGCTCCCCGTCTAATACAGAGATGCCAAATTTGCTTCTTCAAT-T
* * *
1930851 T-CTCCCCGTCTAATACAGAGATGCCAAATCTAT-TTTCTCCGATT
1 TGCTCCCCGTCTAATACAGAGATGCCAAAT-T-TGCTTCTTCAATT
* *
1930895 TGCTCCCCGTCTAATACAAAGATGCCAAATCTGTCTTCTT
1 TGCTCCCCGTCTAATACAGAGATGCCAAATTTG-CTTCTT
1930935 GGATCTGCTT
Statistics
Matches: 70, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 28 0.40
45 40 0.57
46 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.33
Consensus pattern (44 bp):
TGCTCCCCGTCTAATACAGAGATGCCAAATTTGCTTCTTCAATT
Found at i:1931150 original size:78 final size:78
Alignment explanation
Indices: 1930957--1931255 Score: 357
Period size: 78 Copynumber: 3.8 Consensus size: 78
1930947 ATGTAAACAC
*
1930957 ATGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA----TC
*
1931022 TTCTTGGATCTGCTTCA
62 ATCTTGGATCTGCTTCA
** * * * *
1931039 ATGAATATCCA-ATCTGTTATGTATTCGATCTGCTCCCCGTCTAATACAAAGATGTCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
*
1931103 TTGGATCTACTTCA
65 TTGGATCTGCTTCA
* ** * * *
1931117 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCTTCGTCTAATATAGAGATCCCAAGTCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1931182 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * * **
1931195 ATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCATCAAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1931256 TGTTTCTTCG
Statistics
Matches: 185, Mismatches: 30, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
77 2 0.01
78 132 0.71
82 50 0.27
83 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:1931404 original size:44 final size:44
Alignment explanation
Indices: 1931333--1931910 Score: 391
Period size: 44 Copynumber: 13.1 Consensus size: 44
1931323 CACGTGAAAA
* * * *
1931333 CCAAATCTGCTATGTCTTCAATTTGCTCTCTGACAATACAGAGATG
1 CCAAATCTG-T-TATCTTCGATCTGCTCTCTGACAATACAGAGACG
* * *
1931379 CCAAATCTGTTATCTTCAATCTGCTCCCTGACAATACAGAGATG
1 CCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACG
* *
1931423 CCAAATCTGTTATCTTCAATCTGCTCCCTGACAATACAGAGACG
1 CCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACG
** * * *
1931467 CCAAATCTACTGTCTTTGATCTGCTCTCTGACAATACAGAGGCG
1 CCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACG
* * *
1931511 CCAAATC----ATCTTAGAT-TCGCT-TCAGTGTA-AACACATGA-AGG
1 CCAAATCTGTTATCTTCGATCT-GCTCTC--TG-ACAATACA-GAGACG
* * * ** *
1931552 CCAAATCTGCTATGACTTCGATCTGCTCTCCGTCGAATATGGAGATG
1 CCAAATCTGTTAT--CTTCGATCTGCTCTCTGAC-AATACAGAGACG
* * * **
1931599 TCAAATCTGTT-TCTTCGATTTGTTCTCTGACAATACAGAGATA
1 CCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACG
* * *
1931642 CCAAATCT-TCTATCTTTGATCTGCTCTCTAACAATACAGAGACA
1 CCAAATCTGT-TATCTTCGATCTGCTCTCTGACAATACAGAGACG
* * * * * *
1931686 CC-AA-C--TCATCTTAGATTTGCT-TCAATG-TAA-ACACGTGAAGG
1 CCAAATCTGTTATCTTCGATCTGCTCTC--TGACAATACA-GAG-ACG
* * * ** *
1931727 CCAAATCTGCTATTTCTTCGATCTGCTCTCCGTCGAATATGGAGATG
1 CCAAATCTG-T-TATCTTCGATCTGCTCTCTGAC-AATACAGAGACG
* * *
1931774 CCAAATCTGTT-TCTTCGATTTGTTCTCTGACAATACAGAGACA
1 CCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACG
* ** *
1931817 CCAAACCTACTATCTTCGATCTGCTCTCTGATAATACAGAGACG
1 CCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACG
* * *
1931861 CCAAATCTGCTATCTTTGATCTGCTCTCTAACAATACAGAGACG
1 CCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACG
1931905 CCAAAT
1 CCAAAT
1931911 TATCTTAGAT
Statistics
Matches: 423, Mismatches: 76, Indels: 68
0.75 0.13 0.12
Matches are distributed among these distances:
39 8 0.02
40 26 0.06
41 20 0.05
42 7 0.02
43 36 0.09
44 251 0.59
45 4 0.01
46 16 0.04
47 45 0.11
48 9 0.02
49 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (44 bp):
CCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACG
Found at i:1931520 original size:219 final size:219
Alignment explanation
Indices: 1931272--1931689 Score: 579
Period size: 219 Copynumber: 1.9 Consensus size: 219
1931262 TTCGATTTGT
* * *
1931272 TCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCCGCTTCAGTGTAAACACGTGAAAACCAA
1 TCTCTGACAATACAGAGACGCCAAATCATCTTAGATCCGCTTCAGTGTAAACACATGAAAACCAA
* * *
1931337 ATCTGCTATGTCTTCAATTTGCTCTCTGAC-AATACAGAGATGCCAAATCTGTTATCTTCAATCT
66 ATCTGCTATGACTTCAATCTGCTCTCCGACGAATACAGAGATGCCAAATCTGTT-TCTTCAATCT
* *
1931401 GCTCCCTGACAATACAGAGATGCCAAATCTGT-TATCTTCAATCTGCTCCCTGACAATACAGAGA
130 GCTCCCTGACAATACAGAGATACCAAATCT-TCTATCTTCAATCTGCTCCCTAACAATACAGAGA
*
1931465 CGCCAAATCTACTGTCTTTGATCTGC
194 CACCAAATCTACTGTCTTTGATCTGC
* * **
1931491 TCTCTGACAATACAGAGGCGCCAAATCATCTTAGATTCGCTTCAGTGTAAACACATGAAGGCCAA
1 TCTCTGACAATACAGAGACGCCAAATCATCTTAGATCCGCTTCAGTGTAAACACATGAAAACCAA
* * ** * * *
1931556 ATCTGCTATGACTTCGATCTGCTCTCCGTCGAATATGGAGATGTCAAATCTGTTTCTTCGATTTG
66 ATCTGCTATGACTTCAATCTGCTCTCCGACGAATACAGAGATGCCAAATCTGTTTCTTCAATCTG
* * ** *
1931621 TTCTCTGACAATACAGAGATACCAAATCTTCTATCTTTGATCTGCTCTCTAACAATACAGAGACA
131 CTCCCTGACAATACAGAGATACCAAATCTTCTATCTTCAATCTGCTCCCTAACAATACAGAGACA
1931686 CCAA
196 CCAA
1931690 CTCATCTTAG
Statistics
Matches: 172, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
218 1 0.01
219 151 0.88
220 20 0.12
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (219 bp):
TCTCTGACAATACAGAGACGCCAAATCATCTTAGATCCGCTTCAGTGTAAACACATGAAAACCAA
ATCTGCTATGACTTCAATCTGCTCTCCGACGAATACAGAGATGCCAAATCTGTTTCTTCAATCTG
CTCCCTGACAATACAGAGATACCAAATCTTCTATCTTCAATCTGCTCCCTAACAATACAGAGACA
CCAAATCTACTGTCTTTGATCTGC
Found at i:1931578 original size:175 final size:173
Alignment explanation
Indices: 1931378--1931867 Score: 696
Period size: 175 Copynumber: 2.8 Consensus size: 173
1931368 ATACAGAGAT
* * * ** *
1931378 GCCAAATCTGTTATCTTCAATCTGCTC-CCTGAC-AATACAGAGATGCCAAATCTGTTATCTTCA
1 GCCAAATCTGCTATCTTCGATCTGCTCTCC-GTCGAATATGGAGATGCCAAATCTGTT-TCTTCG
* * * * *
1931441 ATCTGCTCCCTGACAATACAGAGACGCCAAATCTACTGTCTTTGATCTGCTCTCTGACAATACAG
64 ATTTGTTCTCTGACAATACAGAGACACCAAATCTACTATCTTTGATCTGCTCTCTGACAATACAG
* *
1931506 AGGCGCCAAATCATCTTAGATTCGCTTCAGTGTAAACACATGAAG
129 AGACGCCAAATCATCTTAGATTCGCTTCAATGTAAACACATGAAG
*
1931551 GCCAAATCTGCTATGACTTCGATCTGCTCTCCGTCGAATATGGAGATGTCAAATCTGTTTCTTCG
1 GCCAAATCTGCTAT--CTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCG
* * *
1931616 ATTTGTTCTCTGACAATACAGAGATACCAAATCTTCTATCTTTGATCTGCTCTCTAACAATACAG
64 ATTTGTTCTCTGACAATACAGAGACACCAAATCTACTATCTTTGATCTGCTCTCTGACAATACAG
* * * *
1931681 AGACACCAACTCATCTTAGATTTGCTTCAATGTAAACACGTGAAG
129 AGACGCCAAATCATCTTAGATTCGCTTCAATGTAAACACATGAAG
1931726 GCCAAATCTGCTATTTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCG
1 GCCAAATCTGCTA--TCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCG
* * *
1931791 ATTTGTTCTCTGACAATACAGAGACACCAAACCTACTATCTTCGATCTGCTCTCTGATAATACAG
64 ATTTGTTCTCTGACAATACAGAGACACCAAATCTACTATCTTTGATCTGCTCTCTGACAATACAG
1931856 AGACGCCAAATC
129 AGACGCCAAATC
1931868 TGCTATCTTT
Statistics
Matches: 281, Mismatches: 30, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
173 13 0.05
175 245 0.87
176 22 0.08
177 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (173 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGAT
TTGTTCTCTGACAATACAGAGACACCAAATCTACTATCTTTGATCTGCTCTCTGACAATACAGAG
ACGCCAAATCATCTTAGATTCGCTTCAATGTAAACACATGAAG
Found at i:1940367 original size:22 final size:21
Alignment explanation
Indices: 1940332--1940407 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
1940322 AAAAGGTATC
* *
1940332 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
1940353 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
1940376 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
1940395 TGC-AATCATATCT
1 TACAAATCATATCT
1940408 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:1940424 original size:35 final size:37
Alignment explanation
Indices: 1940368--1940458 Score: 141
Period size: 35 Copynumber: 2.5 Consensus size: 37
1940358 AATCATATCT
*
1940368 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCACA
1940405 TCTAAGATTG-TATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCACA
1940441 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
1940459 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.38
36 15 0.30
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCACA
Found at i:1940437 original size:14 final size:15
Alignment explanation
Indices: 1940382--1940437 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
1940372 AGATTGCATA
1940382 TCATATCTAAGATTG
1 TCATATCTAAGATTG
1940397 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
1940415 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
1940432 -CATATC
1 TCATATC
1940438 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:1940466 original size:17 final size:19
Alignment explanation
Indices: 1940368--1940458 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
1940358 AATCATATCT
1940368 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
1940387 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
1940405 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
1940422 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
1940441 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
1940459 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 35 0.52
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:1940606 original size:21 final size:20
Alignment explanation
Indices: 1940577--1940616 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1940567 TTGGACTTCG
* *
1940577 TTTTTTTTTTGGATTTATTA
1 TTTTTTTTTGGGACTTATTA
1940597 TTTTTGTTTTGGGACTTATT
1 TTTTT-TTTTGGGACTTATT
1940617 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.12, C:0.03, G:0.15, T:0.70
Consensus pattern (20 bp):
TTTTTTTTTGGGACTTATTA
Found at i:1945464 original size:6 final size:6
Alignment explanation
Indices: 1945453--1945480 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
1945443 TAAATCCAAT
1945453 TAAAAA TAAAAA TAAAAA TAAAAA TAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAA
1945481 TAAATTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:1947330 original size:21 final size:21
Alignment explanation
Indices: 1947306--1947347 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1947296 TAATTCAAGC
*
1947306 ATCAAAACCTATCACTTAAAA
1 ATCAAAACCCATCACTTAAAA
1947327 ATCAAAACCCATCACTTAAAA
1 ATCAAAACCCATCACTTAAAA
1947348 CATTACGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.21
Consensus pattern (21 bp):
ATCAAAACCCATCACTTAAAA
Found at i:1951332 original size:21 final size:21
Alignment explanation
Indices: 1951306--1951349 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1951296 TGATATTACA
1951306 TTATTATTATTTTCTTTCTAT
1 TTATTATTATTTTCTTTCTAT
* *
1951327 TTATTATTTTTTTCTTTTTAT
1 TTATTATTATTTTCTTTCTAT
1951348 TT
1 TT
1951350 TATTTCGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (21 bp):
TTATTATTATTTTCTTTCTAT
Found at i:1951340 original size:17 final size:18
Alignment explanation
Indices: 1951309--1951348 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
1951299 TATTACATTA
1951309 TTATTATTTTCTTTCTAT
1 TTATTATTTTCTTTCTAT
*
1951327 TTATTATTTT-TTTCTTT
1 TTATTATTTTCTTTCTAT
1951344 TTATT
1 TTATT
1951349 TTATTTCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (18 bp):
TTATTATTTTCTTTCTAT
Found at i:1953726 original size:10 final size:10
Alignment explanation
Indices: 1953713--1953772 Score: 67
Period size: 10 Copynumber: 6.4 Consensus size: 10
1953703 ATACAAGCCA
1953713 ATATAATAAT
1 ATATAATAAT
1953723 ATATAATAAT
1 ATATAATAAT
*
1953733 GTA-AATAAT
1 ATATAATAAT
1953742 ATATAAT-A-
1 ATATAATAAT
1953750 A-ATAATAAT
1 ATATAATAAT
1953759 ATGA-AATAAT
1 AT-ATAATAAT
1953769 ATAT
1 ATAT
1953773 TGTTAAAATG
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
7 5 0.12
8 2 0.05
9 11 0.26
10 23 0.55
11 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (10 bp):
ATATAATAAT
Found at i:1953935 original size:23 final size:24
Alignment explanation
Indices: 1953894--1953949 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
1953884 TGACAATGGA
*
1953894 AAAACATA-AAGTAGTATAA-TAT
1 AAAACATATAAGTAGAATAATTAT
1953916 AATAACATATAAGTA-AATAATTAT
1 AA-AACATATAAGTAGAATAATTAT
*
1953940 AAAATATATA
1 AAAACATATA
1953950 TGTATACTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 2 0.07
23 17 0.59
24 10 0.34
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (24 bp):
AAAACATATAAGTAGAATAATTAT
Found at i:1955648 original size:82 final size:83
Alignment explanation
Indices: 1955548--1955706 Score: 212
Period size: 83 Copynumber: 1.9 Consensus size: 83
1955538 CGATTTGTAG
* * * ** *
1955548 AGATGCCAAATCATCTTGA-TCTATTTGAGAACTTTTGAGAATCATATCTGTTATATCCTTGATT
1 AGATGCCAAACCATCTTGAGTCTATTTAAGAACATTTGAGAATCATATCTGCAATATCCTCGATT
1955612 TGTCCCTTGTAAGTATAA
66 TGTCCCTTGTAAGTATAA
* * * *
1955630 AGATGCCAAACCATCTTGAGTTTGTTTAAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATT
1 AGATGCCAAACCATCTTGAGTCTATTTAAGAACATTTGAGAATCATATCTGCAATATCCTCGATT
*
1955695 TGTTCCTTGTAA
66 TGTCCCTTGTAA
1955707 ACACAAGAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
82 18 0.28
83 47 0.72
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.38
Consensus pattern (83 bp):
AGATGCCAAACCATCTTGAGTCTATTTAAGAACATTTGAGAATCATATCTGCAATATCCTCGATT
TGTCCCTTGTAAGTATAA
Found at i:1955722 original size:83 final size:81
Alignment explanation
Indices: 1955548--1955735 Score: 198
Period size: 83 Copynumber: 2.3 Consensus size: 81
1955538 CGATTTGTAG
* * * ** *
1955548 AGATGCCAAATCATCTTGATCTATTTGAGAACTTTTGAGAATCATATCTGTTATATCCTTGATTT
1 AGATACCAAATCATCTTGATCTATTTAAGAACATTTGAGAATCATATCTGCAATATCCTCGATTT
*
1955613 GTCCCTTGTAAGTATAA
66 GTCCCTTGTAAG-ACAA
* * * * * *
1955630 AGATGCCAAACCATCTTGAGTTTGTTTAAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATT
1 AGATACCAAATCATCTTGA-TCTATTTAAGAACATTTGAGAATCATATCTGCAATATCCTCGATT
*
1955695 TGTTCCTTGTAA-ACACA
65 TGTCCCTTGTAAGACA-A
1955712 AGAATACCAAATCATCTTGGATCT
1 AG-ATACCAAATCATCTT-GATCT
1955736 GCTTCAGTAT
Statistics
Matches: 87, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
81 2 0.02
82 21 0.24
83 62 0.71
84 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (81 bp):
AGATACCAAATCATCTTGATCTATTTAAGAACATTTGAGAATCATATCTGCAATATCCTCGATTT
GTCCCTTGTAAGACAA
Found at i:1955942 original size:110 final size:110
Alignment explanation
Indices: 1955749--1955958 Score: 312
Period size: 110 Copynumber: 1.9 Consensus size: 110
1955739 TCAGTATAAA
* * * * * *
1955749 CATCTGAAGGTTAGATCTGCTACATTTGGGAACTTTTGAGAGTCATATCTGCTATGTCCTCGATT
1 CATCTGAAGGTTAGATCTGCCACATCTGAGAACTTCTGAGAATCAAATCTGCTATGTCCTCGATT
* *
1955814 TGTTCCTTGTAAACACAAGAATACCAAATCATCTTAGATCTGCTT
66 TGTCCCTTGTAAACACAAGAATACCAAACCATCTTAGATCTGCTT
*
1955859 CATCTGAAGGTTAGATCTGCCATATCTGAGAACTTCTGAGAATCAAATCTGCTATGTCCTCGATT
1 CATCTGAAGGTTAGATCTGCCACATCTGAGAACTTCTGAGAATCAAATCTGCTATGTCCTCGATT
* * *
1955924 TGTCCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 TGTCCCTTGTAAACACAAGAATACCAAACCATCTT
1955959 GAACTTGTTT
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
110 88 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (110 bp):
CATCTGAAGGTTAGATCTGCCACATCTGAGAACTTCTGAGAATCAAATCTGCTATGTCCTCGATT
TGTCCCTTGTAAACACAAGAATACCAAACCATCTTAGATCTGCTT
Found at i:1956034 original size:83 final size:83
Alignment explanation
Indices: 1955887--1956042 Score: 224
Period size: 83 Copynumber: 1.9 Consensus size: 83
1955877 GCCATATCTG
* * * *
1955887 AGAACTTCTGAGAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAA
1 AGAACTTCTGAGAATCAAATCTGCAATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAA
1955952 CCATCTTGAACTTGTTTA
66 CCATCTTGAACTTGTTTA
* * *
1955970 AGAACATT-TGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAA
1 AGAAC-TTCTGAGAATCAAATCTGCAATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAA
*
1956034 ATCATCTTG
65 ACCATCTTG
1956043 GATCTGCTTC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
83 62 0.97
84 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (83 bp):
AGAACTTCTGAGAATCAAATCTGCAATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAA
CCATCTTGAACTTGTTTA
Found at i:1956157 original size:202 final size:202
Alignment explanation
Indices: 1955778--1956363 Score: 965
Period size: 202 Copynumber: 2.9 Consensus size: 202
1955768 CTACATTTGG
* *
1955778 GAACTTTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAAT
1 GAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAAT
* * * * *
1955843 CATCTTAGATCTG---C--T-T---CATCTGAAGGTTAGATCTGCCATATCTGAGAACTTCTGAG
66 CATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATTTGAGAACTTTTGAG
* *
1955899 AATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAACCATCTTGAACT
131 AGTCATATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAACCATCTTGAACT
1955964 TGTTTAA
196 TGTTTAA
1955971 GAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAAT
1 GAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAAT
1956036 CATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATTTGAGAACTTTTGAG
66 CATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATTTGAGAACTTTTGAG
* * * **
1956101 AGTCATGTATGCTATGTCCTCAATTTGTCCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTT
131 AGTCATATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAACCATCTTGAACT
1956166 TGTTTAA
196 TGTTTAA
*
1956173 GAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTATAAACACAAGAATACCAAAT
1 GAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAAT
1956238 CATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATTTGAGAACTTTTGAG
66 CATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATTTGAGAACTTTTGAG
*
1956303 AGTCATATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAATCATCTTG
131 AGTCATATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAACCATCTTG
1956364 GATCTGCTTC
Statistics
Matches: 365, Mismatches: 19, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
193 75 0.21
196 1 0.00
198 1 0.00
199 1 0.00
202 287 0.79
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (202 bp):
GAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAAT
CATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATTTGAGAACTTTTGAG
AGTCATATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAACCATCTTGAACT
TGTTTAA
Found at i:1956236 original size:83 final size:83
Alignment explanation
Indices: 1956089--1956244 Score: 213
Period size: 83 Copynumber: 1.9 Consensus size: 83
1956079 GCTACATTTG
* * * * * * *
1956089 AGAACTTTTGAGAGTCATGTATGCTATGTCCTCAATTTGTCCCTTGTAAGCACAAGGATGCCAAA
1 AGAACATTTGAGAGTCATATATGCAATGTCCTCAATTTGTCCCTTATAAACACAAGAATACCAAA
1956154 CCATCTTGAGTTTGTTTA
66 CCATCTTGAGTTTGTTTA
* * *
1956172 AGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTATAAACACAAGAATACCAAA
1 AGAACATTTGAGAGTCATATATGCAATGTCCTCAATTTGTCCCTTATAAACACAAGAATACCAAA
*
1956237 TCATCTTG
66 CCATCTTG
1956245 GATCTGCTTC
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
83 62 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (83 bp):
AGAACATTTGAGAGTCATATATGCAATGTCCTCAATTTGTCCCTTATAAACACAAGAATACCAAA
CCATCTTGAGTTTGTTTA
Found at i:1956383 original size:119 final size:119
Alignment explanation
Indices: 1956172--1956403 Score: 392
Period size: 119 Copynumber: 1.9 Consensus size: 119
1956162 AGTTTGTTTA
*
1956172 AGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTATAAACACAAGAATACCAAA
1 AGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTCCCTTATAAACACAAGAATACCAAA
1956237 TCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATTTG
66 TCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATTTG
* * * * * *
1956291 AGAACTTTTGAGAGTCATATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAA
1 AGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTCCCTTATAAACACAAGAATACCAAA
*
1956356 TCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATTTGCTA
66 TCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTA
1956404 TCTTTAATTT
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
119 105 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (119 bp):
AGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTCCCTTATAAACACAAGAATACCAAA
TCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATTTG
Found at i:1971483 original size:14 final size:14
Alignment explanation
Indices: 1971464--1971493 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1971454 AAAGAATTTT
1971464 TTTTCTAAATAAAG
1 TTTTCTAAATAAAG
*
1971478 TTTTCTAAATGAAG
1 TTTTCTAAATAAAG
1971492 TT
1 TT
1971494 GAACCAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (14 bp):
TTTTCTAAATAAAG
Found at i:1979929 original size:14 final size:16
Alignment explanation
Indices: 1979894--1979930 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
1979884 CAAACGATGC
1979894 GATG-AAATGCTATGA
1 GATGCAAATGCTATGA
1979909 GATGCAAATGC-ATGA
1 GATGCAAATGCTATGA
1979924 -ATGCAAA
1 GATGCAAA
1979931 AAGGATATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (16 bp):
GATGCAAATGCTATGA
Found at i:1983608 original size:24 final size:25
Alignment explanation
Indices: 1983581--1983628 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
1983571 AATACCTAAT
1983581 GATT-TATATA-ATAACATATAAAAG
1 GATTATATATATATAA-ATATAAAAG
1983605 GATTAATATATATATAAATATAAA
1 GATT-ATATATATATAAATATAAA
1983629 CTAAAGTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 4 0.19
26 13 0.62
27 4 0.19
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.35
Consensus pattern (25 bp):
GATTATATATATATAAATATAAAAG
Found at i:1984025 original size:14 final size:16
Alignment explanation
Indices: 1984003--1984040 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
1983993 AAAATCTTTA
*
1984003 ATAATAATAT-ATAG-
1 ATAAAAATATAATAGT
1984017 ATAAAAATATAATAGT
1 ATAAAAATATAATAGT
1984033 ATAAAAAT
1 ATAAAAAT
1984041 GACATAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
15 4 0.19
16 8 0.38
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
ATAAAAATATAATAGT
Found at i:1984029 original size:25 final size:26
Alignment explanation
Indices: 1983961--1984030 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 26
1983951 AATTATTAAC
* *
1983961 ATATAAATAAAAATA-AGTACATAAT
1 ATATAGATAAAAATATAATACATAAT
* * *
1983986 ATA-AGTTAAAATCTTTAATA-ATAAT
1 ATATAGATAAAA-ATATAATACATAAT
1984011 ATATAGATAAAAATATAATA
1 ATATAGATAAAAATATAATA
1984031 GTATAAAAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
24 6 0.18
25 18 0.53
26 10 0.29
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (26 bp):
ATATAGATAAAAATATAATACATAAT
Found at i:1984202 original size:23 final size:21
Alignment explanation
Indices: 1984181--1984237 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
1984171 TTGTGAAAAG
1984181 TAATATATAATAAATAACAAA
1 TAATATATAATAAATAACAAA
* *
1984202 -AATATATAATAAAATAATTATA
1 TAATATATAAT-AAATAA-CAAA
1984224 TAATATATAATAAA
1 TAATATATAATAAA
1984238 AAATAAGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 10 0.32
21 6 0.19
22 5 0.16
23 10 0.32
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
TAATATATAATAAATAACAAA
Found at i:1984207 original size:20 final size:22
Alignment explanation
Indices: 1984182--1984237 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
1984172 TGTGAAAAGT
1984182 AATATATAATAAATAA-CA-AA
1 AATATATAATAAATAATCATAA
* *
1984202 AATATATAATAAAATAATTATAT
1 AATATATAAT-AAATAATCATAA
1984225 AATATATAATAAA
1 AATATATAATAAA
1984238 AAATAAGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.32
21 6 0.19
22 4 0.13
23 11 0.35
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
AATATATAATAAATAATCATAA
Found at i:1985453 original size:36 final size:38
Alignment explanation
Indices: 1985419--1985497 Score: 110
Period size: 37 Copynumber: 2.1 Consensus size: 38
1985409 TTATTGGGTT
1985419 TGGGTGTAAACAGGTT-TTGGG-TAGTTTAGCTGGGTCA
1 TGGGTGT-AACAGGTTATTGGGTTAGTTTAGCTGGGTCA
* *
1985456 TGGGTGTAACGGGTTATTGGGTTAGTTTAG-TGTGTCA
1 TGGGTGTAACAGGTTATTGGGTTAGTTTAGCTGGGTCA
1985493 TGGGT
1 TGGGT
1985498 AGGACTAGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
36 7 0.18
37 23 0.61
38 8 0.21
ACGTcount: A:0.16, C:0.06, G:0.39, T:0.38
Consensus pattern (38 bp):
TGGGTGTAACAGGTTATTGGGTTAGTTTAGCTGGGTCA
Found at i:1991492 original size:16 final size:16
Alignment explanation
Indices: 1991471--1991504 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
1991461 ATATATAGTT
1991471 AATTAATT-AAAATATG
1 AATTAATTGAAAAT-TG
1991487 AATTAATTGAAAATTG
1 AATTAATTGAAAATTG
1991503 AA
1 AA
1991505 AAATGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (16 bp):
AATTAATTGAAAATTG
Found at i:1991952 original size:26 final size:26
Alignment explanation
Indices: 1991929--1991979 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
1991919 TTTATTGAAT
* *
1991929 AATTGACTGTTACTGGATAATTGATC
1 AATTGACTGATACTGAATAATTGATC
* *
1991955 AATTGATTGATACTGAATAACTGAT
1 AATTGACTGATACTGAATAATTGAT
1991980 TATTATTGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (26 bp):
AATTGACTGATACTGAATAATTGATC
Found at i:1991992 original size:62 final size:61
Alignment explanation
Indices: 1991899--1992014 Score: 169
Period size: 62 Copynumber: 1.9 Consensus size: 61
1991889 GAATAATTTA
* * * * *
1991899 ATTGTTACTGTATATCTGATTTTATTGAATAATTGACTGTTACTGGATAATTGATCAATTG
1 ATTGATACTGAATAACTGATTTTATTGAATAATTGACTGTTACCGAATAATTGATCAATTG
*
1991960 ATTGATACTGAATAACTGATTATTATTGAATAATTGATTGTTACCGAATAATTGA
1 ATTGATACTGAATAACTGATT-TTATTGAATAATTGACTGTTACCGAATAATTGA
1992015 CTGTTACTGA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
61 18 0.38
62 30 0.62
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.43
Consensus pattern (61 bp):
ATTGATACTGAATAACTGATTTTATTGAATAATTGACTGTTACCGAATAATTGATCAATTG
Found at i:1992026 original size:36 final size:36
Alignment explanation
Indices: 1991955--1992037 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
1991945 ATAATTGATC
* * * *
1991955 AATTGATTGATACTGAATAACTGATTATTATTGAAT
1 AATTGATTGTTACCGAATAACTGACTATTACTGAAT
* *
1991991 AATTGATTGTTACCGAATAATTGACTGTTACTGAAT
1 AATTGATTGTTACCGAATAACTGACTATTACTGAAT
* *
1992027 AAATAATTGTT
1 AATTGATTGTT
1992038 CTAATTGACT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.41
Consensus pattern (36 bp):
AATTGATTGTTACCGAATAACTGACTATTACTGAAT
Found at i:1992037 original size:18 final size:18
Alignment explanation
Indices: 1991884--1992028 Score: 96
Period size: 18 Copynumber: 7.6 Consensus size: 18
1991874 AGATCGACTA
*
1991884 TTACTGAATAATTTAATTG
1 TTACTGAATAA-TTGATTG
*
1991903 TTACTGTAT-ATCTGATT-
1 TTACTGAATAAT-TGATTG
* *
1991920 TTATTGAATAATTGACTG
1 TTACTGAATAATTGATTG
1991938 TTACTGGATAATTGATCAATTGATTG
1 TTACT-G---A---AT-AATTGATTG
* * *
1991964 ATACTGAATAACTGATTA
1 TTACTGAATAATTGATTG
*
1991982 TTATTGAATAATTGATTG
1 TTACTGAATAATTGATTG
* *
1992000 TTACCGAATAATTGACTG
1 TTACTGAATAATTGATTG
1992018 TTACTGAATAA
1 TTACTGAATAA
1992029 ATAATTGTTC
Statistics
Matches: 97, Mismatches: 18, Indels: 23
0.70 0.13 0.17
Matches are distributed among these distances:
17 12 0.12
18 57 0.59
19 11 0.11
22 2 0.02
25 3 0.03
26 12 0.12
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.43
Consensus pattern (18 bp):
TTACTGAATAATTGATTG
Found at i:1993935 original size:44 final size:44
Alignment explanation
Indices: 1993883--1993972 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
1993873 TCATAGGCTC
*
1993883 TTTTACAACCTTAGAAAATACACCCATTATAACTCATAACACAT
1 TTTTACAACCTTAGAAAATACACCCATTAGAACTCATAACACAT
1993927 TTTTACAACCTTAGAAAATACACCCATTAGAACTCATAACACAT
1 TTTTACAACCTTAGAAAATACACCCATTAGAACTCATAACACAT
1993971 TT
1 TT
1993973 AGAGAATTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.42, C:0.24, G:0.03, T:0.30
Consensus pattern (44 bp):
TTTTACAACCTTAGAAAATACACCCATTAGAACTCATAACACAT
Found at i:1996560 original size:15 final size:17
Alignment explanation
Indices: 1996535--1996567 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1996525 TTAAATTAGT
1996535 TTTTATTTAAAA-ATAA
1 TTTTATTTAAAATATAA
1996551 TTTT-TTTAAAATATAA
1 TTTTATTTAAAATATAA
1996567 T
1 T
1996568 GCATTAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTATTTAAAATATAA
Found at i:1997118 original size:20 final size:20
Alignment explanation
Indices: 1997079--1997120 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1997069 AAAAAGAAAA
*
1997079 AGAAGAAGAAAAGTAGGAAG
1 AGAAGAAGAAAAGGAGGAAG
1997099 AGAAGAAGAAGAAGGA-GAAG
1 AGAAGAAGAA-AAGGAGGAAG
1997119 AG
1 AG
1997121 GAAAAATGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.38, T:0.02
Consensus pattern (20 bp):
AGAAGAAGAAAAGGAGGAAG
Found at i:1997724 original size:56 final size:56
Alignment explanation
Indices: 1997657--1997769 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 56
1997647 TACAAATTGC
* *
1997657 TTAACATTTGGTATACATGGCTGCTGGTTAGAAAAGATAACAATTGATATACAAAT
1 TTAACAGTTGGTATACATGGCTGCTAGTTAGAAAAGATAACAATTGATATACAAAT
* *
1997713 TTAACAGTTGGTATACATGGCTGCTAGTTAGAAAAGATAACAGTTGGTATACAAAT
1 TTAACAGTTGGTATACATGGCTGCTAGTTAGAAAAGATAACAATTGATATACAAAT
1997769 T
1 T
1997770 GCTTAACAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (56 bp):
TTAACAGTTGGTATACATGGCTGCTAGTTAGAAAAGATAACAATTGATATACAAAT
Found at i:1999024 original size:43 final size:43
Alignment explanation
Indices: 1998930--1999106 Score: 238
Period size: 43 Copynumber: 4.2 Consensus size: 43
1998920 TAAAAAAAAC
* *
1998930 TCATTGCATGCATATTAAAAAATAGGCAACA-C--ACCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
1998970 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
* * *
1999013 TCAATGCATGCATATTAAAAAATAGTCAACAACTTTCCAATAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
* * *
1999056 TCATTGCATACATATT-AAAAA-AGTCAATAGATTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
*
1999097 TCACTGCATG
1 TCATTGCATG
1999107 TGATCAGCAA
Statistics
Matches: 121, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
40 30 0.25
41 25 0.21
42 5 0.04
43 61 0.50
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (43 bp):
TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
Found at i:1999105 original size:84 final size:83
Alignment explanation
Indices: 1998934--1999106 Score: 242
Period size: 84 Copynumber: 2.1 Consensus size: 83
1998924 AAAAACTCAT
*
1998934 TGCATGCATATTAAAAAATAGGCAACACACCAACAATCATTGCATGCATATTAAAAAATAGTCAA
1 TGCATGCATATTAAAAAATAGGCAACACACCAACAATCATTGCATACATATTAAAAAATAGTCAA
*
1998999 CAGCTTTCCAACAATCAA
66 CAGATTTCCAACAATCAA
* * *
1999017 TGCATGCATATTAAAAAATAGTCAACAACTTTCCAATAATCATTGCATACATATT-AAAAA-AGT
1 TGCATGCATATTAAAAAATAGGCAAC-AC--ACCAACAATCATTGCATACATATTAAAAAATAGT
* *
1999080 CAATAGATTTCCAACAATCAC
63 CAACAGATTTCCAACAATCAA
1999101 TGCATG
1 TGCATG
1999107 TGATCAGCAA
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
83 25 0.31
84 29 0.36
85 5 0.06
86 21 0.26
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.26
Consensus pattern (83 bp):
TGCATGCATATTAAAAAATAGGCAACACACCAACAATCATTGCATACATATTAAAAAATAGTCAA
CAGATTTCCAACAATCAA
Found at i:2000770 original size:15 final size:16
Alignment explanation
Indices: 2000745--2000778 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
2000735 TCAGATGCAT
2000745 CACTATCACTACCAGA
1 CACTATCACTACCAGA
2000761 CACT-TCACTACCAGA
1 CACTATCACTACCAGA
2000776 CAC
1 CAC
2000779 ATTTTCTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.35, C:0.41, G:0.06, T:0.18
Consensus pattern (16 bp):
CACTATCACTACCAGA
Found at i:2000956 original size:62 final size:61
Alignment explanation
Indices: 2000881--2001011 Score: 156
Period size: 62 Copynumber: 2.1 Consensus size: 61
2000871 CCATTTTTGT
* ** * *
2000881 CAGACAATAACCAATACAAAATACTGAA-TAATTTAATACAAACACTTCTGTCATGCACATGG
1 CAGACAACAACCAATACAAAA-A-TGAATTAATCAAACACAAACACTTCTCTCATGCACATGG
* * *
2000943 CAGACAACAACCAATACAAAAATTAATTTAATCAAACACAACCATTTCTCTCATGCACATGG
1 CAGACAACAACCAATACAAAAATGAA-TTAATCAAACACAAACACTTCTCTCATGCACATGG
2001005 CAGACAA
1 CAGACAA
2001012 AAATAGGCAA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 3 0.05
61 1 0.02
62 55 0.93
ACGTcount: A:0.46, C:0.24, G:0.08, T:0.22
Consensus pattern (61 bp):
CAGACAACAACCAATACAAAAATGAATTAATCAAACACAAACACTTCTCTCATGCACATGG
Found at i:2001144 original size:62 final size:61
Alignment explanation
Indices: 2001063--2001207 Score: 254
Period size: 62 Copynumber: 2.3 Consensus size: 61
2001053 TAGGAGCCTG
*
2001063 GATACAAACAATGATAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCA
1 GATACAAACAATG-CAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCA
2001125 GATACAAACAATAGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCA
1 GATACAAACAAT-GCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCA
2001187 GATACAAACAATGGCAGATAT
1 GATACAAACAAT-GCAGATAT
2001208 GGCAGATACA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
62 79 0.99
63 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.27
Consensus pattern (61 bp):
GATACAAACAATGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCA
Found at i:2001209 original size:25 final size:25
Alignment explanation
Indices: 2001181--2001232 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
2001171 GTATAATTTA
2001181 ATGGCAGATACAAACAATGGCAGAT
1 ATGGCAGATACAAACAATGGCAGAT
2001206 ATGGCAGATACAAACAATGGCAGAT
1 ATGGCAGATACAAACAATGGCAGAT
2001231 AT
1 AT
2001233 ACACAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.17
Consensus pattern (25 bp):
ATGGCAGATACAAACAATGGCAGAT
Found at i:2001239 original size:16 final size:16
Alignment explanation
Indices: 2001180--2001231 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
2001170 TGTATAATTT
2001180 AATGGCAGATACAAAC
1 AATGGCAGATACAAAC
2001196 AATGGCAGAT------
1 AATGGCAGATACAAAC
2001206 -ATGGCAGATACAAAC
1 AATGGCAGATACAAAC
2001221 AATGGCAGATA
1 AATGGCAGATA
2001232 TACACAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
9 9 0.31
16 20 0.69
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.15
Consensus pattern (16 bp):
AATGGCAGATACAAAC
Found at i:2001362 original size:64 final size:64
Alignment explanation
Indices: 2001206--2001480 Score: 363
Period size: 64 Copynumber: 4.2 Consensus size: 64
2001196 AATGGCAGAT
* * *
2001206 ATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATTTAATAATC-TATAAT
1 ATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTGA--TAATGA-CAT-TCAT
**
2001270 TTA
62 ACA
* *
2001273 ATGGCAGATACAAACAATGGAAGATATACACAATAAACATCAATTTGATAATGACATTCATACA
1 ATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGACATTCATACA
* * *
2001337 ATGGCGGATACAAACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCATTCATACA
1 ATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGACATTCATACA
* ** * * *
2001401 ATGACAGATACAAACAATGGCAGATACGCACAATAAAGACCAGTTTGATAATGGCATTCATACA
1 ATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGACATTCATACA
2001465 ATGGCAGATACAAACA
1 ATGGCAGATACAAACA
2001481 CATCAAAATC
Statistics
Matches: 189, Mismatches: 18, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
64 138 0.73
65 6 0.03
67 45 0.24
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (64 bp):
ATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGACATTCATACA
Found at i:2001747 original size:24 final size:24
Alignment explanation
Indices: 2001720--2001790 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
2001710 GAGTGTTTCA
*
2001720 AAATTGTAATCAAAATCGAAATAG
1 AAATTGAAATCAAAATCGAAATAG
* * * *
2001744 AAATCGAAAGCAAAATCAAAATCG
1 AAATTGAAATCAAAATCGAAATAG
*
2001768 AAATT-AAATTTAAAATCGAAATA
1 AAATTGAAA-TCAAAATCGAAATA
2001791 TCCCTAATTA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
23 3 0.08
24 33 0.92
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.23
Consensus pattern (24 bp):
AAATTGAAATCAAAATCGAAATAG
Found at i:2001771 original size:12 final size:12
Alignment explanation
Indices: 2001717--2001789 Score: 51
Period size: 12 Copynumber: 6.1 Consensus size: 12
2001707 AGTGAGTGTT
* *
2001717 TCAAAATTGTAA
1 TCAAAATCGAAA
2001729 TCAAAATCGAAA
1 TCAAAATCGAAA
2001741 T-AGAAATCGAAA
1 TCA-AAATCGAAA
* *
2001753 GCAAAATCAAAA
1 TCAAAATCGAAA
* *
2001765 TCGAAAT-TAAA
1 TCAAAATCGAAA
*
2001776 TTTAAAATCGAAA
1 -TCAAAATCGAAA
2001789 T
1 T
2001790 ATCCCTAATT
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
11 4 0.09
12 39 0.83
13 4 0.09
ACGTcount: A:0.56, C:0.11, G:0.10, T:0.23
Consensus pattern (12 bp):
TCAAAATCGAAA
Found at i:2002231 original size:20 final size:20
Alignment explanation
Indices: 2002206--2002244 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2002196 AAAGTGGCAA
2002206 GTTAACTTACCACATCAACG
1 GTTAACTTACCACATCAACG
* *
2002226 GTTAACTTGCCACGTCAAC
1 GTTAACTTACCACATCAAC
2002245 AATCCCGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.26
Consensus pattern (20 bp):
GTTAACTTACCACATCAACG
Found at i:2002314 original size:31 final size:29
Alignment explanation
Indices: 2002275--2002347 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 29
2002265 GGTAACTGTT
*
2002275 AGTTAGTGACTGTTTTGTCACTTTTTTATA
1 AGTTAGTGACTGTTTTGTCACTTTTTGA-A
* *
2002305 ACGTTAGTGACCGTTTTGTTACTTTTTGAA
1 A-GTTAGTGACTGTTTTGTCACTTTTTGAA
2002335 AGTTAAGTGACTG
1 AGTT-AGTGACTG
2002348 AAATGAAACC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 3 0.08
30 10 0.27
31 24 0.65
ACGTcount: A:0.22, C:0.11, G:0.21, T:0.47
Consensus pattern (29 bp):
AGTTAGTGACTGTTTTGTCACTTTTTGAA
Found at i:2010626 original size:20 final size:20
Alignment explanation
Indices: 2010590--2010627 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2010580 ATGAAACACA
*
2010590 TCAAAATACAGGTAAATTTC
1 TCAAAATACAGGAAAATTTC
2010610 TCAAAATGAC-GGAAAATT
1 TCAAAAT-ACAGGAAAATT
2010628 ACAAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.26
Consensus pattern (20 bp):
TCAAAATACAGGAAAATTTC
Done.