Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007725.1 Hibiscus syriacus cultivar Beakdansim tig00109972_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: 3026330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 14
Found at i:851733 original size:14 final size:14
Alignment explanation
Indices: 851725--851843 Score: 66
Period size: 14 Copynumber: 8.1 Consensus size: 14
851715 ATATAAGTAT
851725 TAAAGTATATAAATA
1 TAAAGTAT-TAAATA
851740 T-AAGTATTAAATA
1 TAAAGTATTAAATA
*
851753 TAAAGTATATAAGTA
1 TAAAGTAT-TAAATA
* *
851768 CATAAGTACTAAAATA
1 TA-AAGTA-TTAAATA
*
851784 TATAATGTA--AAGTA
1 TA-AA-GTATTAAATA
*
851798 TTAAACTA-TATAATA
1 -TAAAGTATTA-AATA
*
851813 TCAAGTATTAAATA
1 TAAAGTATTAAATA
*
851827 TCAAGTATTAAAGTA
1 TAAAGTATTAAA-TA
851842 TA
1 TA
851844 TAAATATAAG
Statistics
Matches: 83, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
13 9 0.11
14 40 0.48
15 17 0.20
16 13 0.16
17 4 0.05
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.34
Consensus pattern (14 bp):
TAAAGTATTAAATA
Found at i:851759 original size:36 final size:36
Alignment explanation
Indices: 851715--851864 Score: 173
Period size: 36 Copynumber: 4.1 Consensus size: 36
851705 AAGTGTTTGG
851715 ATAT-AAGTATTAAAGTATATAAATATAAGTATTAA
1 ATATAAAGTATTAAAGTATATAAATATAAGTATTAA
* * *
851750 ATATAAAGTA-TATAAGTACATAAGTACTAA-AATATATA
1 ATATAAAGTATTA-AAGTATATAAATA-TAAGTAT-TA-A
* *
851788 ATGTAAAGTATTAAACTATAT-AATATCAAGTATTAA
1 ATATAAAGTATTAAAGTATATAAATAT-AAGTATTAA
*
851824 ATATCAAGTATTAAAGTATATAAATATAAGTATTAA
1 ATATAAAGTATTAAAGTATATAAATATAAGTATTAA
851860 ATATA
1 ATATA
851865 TTTAATAATC
Statistics
Matches: 94, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
35 6 0.06
36 51 0.54
37 17 0.18
38 18 0.19
39 2 0.02
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.35
Consensus pattern (36 bp):
ATATAAAGTATTAAAGTATATAAATATAAGTATTAA
Found at i:851854 original size:14 final size:13
Alignment explanation
Indices: 851727--851864 Score: 65
Period size: 14 Copynumber: 10.1 Consensus size: 13
851717 ATAAGTATTA
851727 AAGTATATAAATAT
1 AAGTAT-TAAATAT
851741 AAGTATTAAATAT
1 AAGTATTAAATAT
*
851754 AAAGTATATAAGTACAT
1 -AAGTAT-TAA--ATAT
*
851771 AAGTACTAAA-AT
1 AAGTATTAAATAT
851783 ATA-TAATGTAAAGTATT
1 A-AGT-AT-TAAA-TA-T
*
851800 AAACTA-TATAATAT
1 -AAGTATTA-AATAT
851814 CAAGTATTAAATAT
1 -AAGTATTAAATAT
*
851828 CAAGTATTAAA-GT
1 -AAGTATTAAATAT
851841 -A-TA-TAAATAT
1 AAGTATTAAATAT
851851 AAGTATTAAATAT
1 AAGTATTAAATAT
851864 A
1 A
851865 TTTAATAATC
Statistics
Matches: 99, Mismatches: 7, Indels: 37
0.69 0.05 0.26
Matches are distributed among these distances:
9 4 0.04
10 3 0.03
11 2 0.02
12 6 0.06
13 19 0.19
14 37 0.37
15 12 0.12
16 8 0.08
17 6 0.06
18 2 0.02
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (13 bp):
AAGTATTAAATAT
Found at i:851871 original size:22 final size:24
Alignment explanation
Indices: 851818--851871 Score: 78
Period size: 22 Copynumber: 2.4 Consensus size: 24
851808 TAATATCAAG
851818 TATTAAATATCAAGTATTAAAGTA
1 TATTAAATATCAAGTATTAAAGTA
851842 TA-TAAATAT-AAGTATTAAA-TA
1 TATTAAATATCAAGTATTAAAGTA
*
851863 TATTTAATA
1 TATTAAATA
851872 ATCATAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 4 0.14
22 15 0.54
23 7 0.25
24 2 0.07
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.41
Consensus pattern (24 bp):
TATTAAATATCAAGTATTAAAGTA
Found at i:852116 original size:16 final size:16
Alignment explanation
Indices: 852095--852143 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
852085 TATCATTTAT
*
852095 AGGTCAGGCTGAAAAC
1 AGGTCAGGTTGAAAAC
* *
852111 AGGTCAGGTTCATAAC
1 AGGTCAGGTTGAAAAC
*
852127 AGATCAGGTTGAAAAC
1 AGGTCAGGTTGAAAAC
852143 A
1 A
852144 AGTCGGGTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.39, C:0.16, G:0.27, T:0.18
Consensus pattern (16 bp):
AGGTCAGGTTGAAAAC
Found at i:853444 original size:28 final size:28
Alignment explanation
Indices: 853412--853478 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
853402 CCGTTGTTGC
*
853412 TTTCAAACATTGGCTTGTCAGTATAATA
1 TTTCAAGCATTGGCTTGTCAGTATAATA
853440 TTTCAAGCATTGGCTTGTCAGTATAATA
1 TTTCAAGCATTGGCTTGTCAGTATAATA
853468 TTTCAAGCATT
1 TTTCAAGCATT
853479 AACTCACGAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (28 bp):
TTTCAAGCATTGGCTTGTCAGTATAATA
Found at i:868441 original size:28 final size:30
Alignment explanation
Indices: 868410--868465 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
868400 CAAAAATAAC
*
868410 ATACAGAAGA-AA-ACACACTCCTACAAAA
1 ATACAGAAGACAAGAAACACTCCTACAAAA
**
868438 ATACTTAAGACAAGAAACACTCCTACAA
1 ATACAGAAGACAAGAAACACTCCTACAA
868466 TACCTCACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 8 0.35
29 2 0.09
30 13 0.57
ACGTcount: A:0.54, C:0.25, G:0.07, T:0.14
Consensus pattern (30 bp):
ATACAGAAGACAAGAAACACTCCTACAAAA
Found at i:881692 original size:11 final size:11
Alignment explanation
Indices: 881672--881700 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
881662 TTGCTAGTTT
881672 GGAG-AAAAAG
1 GGAGAAAAAAG
881682 GGAGAAAAAAG
1 GGAGAAAAAAG
881693 GGAGAAAA
1 GGAGAAAA
881701 TACTTCTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (11 bp):
GGAGAAAAAAG
Found at i:885691 original size:15 final size:14
Alignment explanation
Indices: 885671--885715 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
885661 TTAAACTTTT
885671 AAAATATAAGAATTA
1 AAAATATAA-AATTA
*
885686 AAAATATCAAATT-
1 AAAATATAAAATTA
885699 AAAATATATAAATTA
1 AAAATATA-AAATTA
885714 AA
1 AA
885716 GAGAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 7 0.27
14 9 0.35
15 10 0.38
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (14 bp):
AAAATATAAAATTA
Found at i:885704 original size:13 final size:13
Alignment explanation
Indices: 885669--885715 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 13
885659 GATTAAACTT
885669 TTAAAATATAAGAA
1 TTAAAATATAA-AA
*
885683 TTAAAAATATCAAA
1 TT-AAAATATAAAA
885697 TTAAAATATATAAA
1 TTAAAATATA-AAA
885711 TTAAA
1 TTAAA
885716 GAGAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 7 0.24
14 14 0.48
15 8 0.28
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (13 bp):
TTAAAATATAAAA
Found at i:885976 original size:20 final size:20
Alignment explanation
Indices: 885797--885987 Score: 124
Period size: 20 Copynumber: 9.6 Consensus size: 20
885787 AAATGACCAA
*
885797 CAAATTCGCAATGCG-ATCTT
1 CAAATTCGCAACGCGAAT-TT
*
885817 -AAATTCGCAACGCGAATTC
1 CAAATTCGCAACGCGAATTT
* * *
885836 CAATTTCGCAAC-CCAGATTC
1 CAAATTCGCAACGCGA-ATTT
* * *
885856 CAATTTCACAACGCGAATATC
1 CAAATTCGCAACGCGAAT-TT
*** *
885877 CAAATTCGCGTTGCGATTTT
1 CAAATTCGCAACGCGAATTT
*
885897 CCAAATTCGCAACGCG-ATAAT
1 -CAAATTCGCAACGCGAAT-TT
* * **
885918 CAAATCCTCAACGCGAAAGT
1 CAAATTCGCAACGCGAATTT
*
885938 CAAATTCGCAAC-TGAATTT
1 CAAATTCGCAACGCGAATTT
885957 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACGCGAATTT
*
885977 -AATTTCGCAAC
1 CAAATTCGCAAC
885988 AGGTTTTAGT
Statistics
Matches: 133, Mismatches: 29, Indels: 19
0.73 0.16 0.10
Matches are distributed among these distances:
19 42 0.32
20 61 0.46
21 30 0.23
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.26
Consensus pattern (20 bp):
CAAATTCGCAACGCGAATTT
Found at i:886754 original size:12 final size:12
Alignment explanation
Indices: 886733--886766 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
886723 ACCACATTTC
*
886733 CAATACCAAACA
1 CAATATCAAACA
886745 CAATATCAAACA
1 CAATATCAAACA
*
886757 CAATCTCAAA
1 CAATATCAAA
886767 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:886943 original size:24 final size:24
Alignment explanation
Indices: 886892--886945 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
886882 GTATTCAAAA
*
886892 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
886916 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
886940 TTTGAT
1 TTTGAT
886946 GATGTGATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:889225 original size:12 final size:12
Alignment explanation
Indices: 889208--889248 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
889198 AAGCAATAGA
*
889208 AATCAAAATCGT
1 AATCAAAATCGC
889220 AATCAAAATCGC
1 AATCAAAATCGC
*
889232 AATCAAAATCCC
1 AATCAAAATCGC
889244 AATCA
1 AATCA
889249 CAACCGACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.51, C:0.24, G:0.05, T:0.20
Consensus pattern (12 bp):
AATCAAAATCGC
Found at i:889578 original size:34 final size:34
Alignment explanation
Indices: 889534--889626 Score: 123
Period size: 34 Copynumber: 2.7 Consensus size: 34
889524 ATGTTGCAAT
889534 CAACGCGAAAGTCAAATTCGCAACGCGAAATAAG
1 CAACGCGAAAGTCAAATTCGCAACGCGAAATAAG
* * *
889568 CAACGTGAAAGACAAATTCACAACGCGAAATAAG
1 CAACGCGAAAGTCAAATTCGCAACGCGAAATAAG
*** *
889602 CGTTGCGATAGTCAAATTCGCAACG
1 CAACGCGAAAGTCAAATTCGCAACG
889627 TGATTGTCAA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.42, C:0.23, G:0.20, T:0.15
Consensus pattern (34 bp):
CAACGCGAAAGTCAAATTCGCAACGCGAAATAAG
Found at i:889649 original size:20 final size:20
Alignment explanation
Indices: 889612--889649 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
889602 CGTTGCGATA
*
889612 GTCAAATTCGCAACGTGATT
1 GTCAAATTCACAACGTGATT
*
889632 GTCAAATTCACAATGTGA
1 GTCAAATTCACAACGTGA
889650 AATCGTAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (20 bp):
GTCAAATTCACAACGTGATT
Found at i:889729 original size:20 final size:20
Alignment explanation
Indices: 889704--889745 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
889694 GCAATGCTTA
889704 TTTTGTGTTGCGAATTTACC
1 TTTTGTGTTGCGAATTTACC
889724 TTTTGTGTTGCGAATTTACC
1 TTTTGTGTTGCGAATTTACC
889744 TT
1 TT
889746 CAACAAGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.19, T:0.52
Consensus pattern (20 bp):
TTTTGTGTTGCGAATTTACC
Found at i:889844 original size:25 final size:25
Alignment explanation
Indices: 889806--889854 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
889796 AAATCAATTA
*
889806 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
889831 AACATTGTTATGGGTACATTATTT
1 AACATTGTTATGGGTACATTATTT
889855 TGGAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:890286 original size:24 final size:24
Alignment explanation
Indices: 890235--890287 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
890225 TTTCATATGT
* * * *
890235 AATTGGAGTTTTAATTTCAATTTC
1 AATTTGAGTTTGAATTTCAATATA
*
890259 AATTTGAGTTTGAATTTTAATATA
1 AATTTGAGTTTGAATTTCAATATA
890283 AATTT
1 AATTT
890288 CGGCTCCACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTCAATATA
Found at i:890632 original size:39 final size:39
Alignment explanation
Indices: 890589--890675 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
890579 TCCGATGCTC
890589 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
*
890628 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
890667 ATCAAAATC
1 ATCAAAATC
890676 TACAACTTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:890940 original size:34 final size:34
Alignment explanation
Indices: 890902--890973 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
890892 ATAGTCAAAT
890902 TCGCAAAC-CGAAAATCGCGTTGCGAATTTGACTA
1 TCGC-AACGCGAAAATCGCGTTGCGAATTTGACTA
** ** *
890936 TCGCAACGCTTATTTCGCGTTGCGAATTTGACTT
1 TCGCAACGCGAAAATCGCGTTGCGAATTTGACTA
890970 TCGC
1 TCGC
890974 GTTGCGAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 3 0.09
34 29 0.91
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (34 bp):
TCGCAACGCGAAAATCGCGTTGCGAATTTGACTA
Found at i:890973 original size:20 final size:20
Alignment explanation
Indices: 890948--890985 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
890938 GCAACGCTTA
890948 TTTCGCGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
890968 TTTCGCGTTGCGAATTTG
1 TTTCGCGTTGCGAATTTG
890986 TACCTTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.18, G:0.26, T:0.42
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTGAC
Found at i:892516 original size:21 final size:22
Alignment explanation
Indices: 892492--892544 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
892482 ATGCATCGGG
892492 CTCTTGAACGGCA-GAC-GGGAC
1 CTCTTGAACGG-ATGACGGGGAC
*
892513 CTCTTGAAC-GATGACGGGGGC
1 CTCTTGAACGGATGACGGGGAC
892534 CTCTTGAACGG
1 CTCTTGAACGG
892545 TGGGAGGGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 4 0.14
21 22 0.79
22 1 0.04
ACGTcount: A:0.21, C:0.26, G:0.34, T:0.19
Consensus pattern (22 bp):
CTCTTGAACGGATGACGGGGAC
Found at i:892553 original size:21 final size:21
Alignment explanation
Indices: 892512--892604 Score: 82
Period size: 21 Copynumber: 4.4 Consensus size: 21
892502 GCAGACGGGA
*
892512 CCTCTTGAACGATGACG-GGGG
1 CCTCTTGAACGAT-AGGAGGGG
* *
892533 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATAGGAGGGG
* * *
892554 CTTCTTCG-ATGATAAGAGGGG
1 CCTCTT-GAACGATAGGAGGGG
**
892575 CCTCTTGAACGATAGGAGACG
1 CCTCTTGAACGATAGGAGGGG
892596 CCTCTTGAA
1 CCTCTTGAA
892605 TGATGATAGG
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
20 2 0.04
21 53 0.95
22 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.34, T:0.23
Consensus pattern (21 bp):
CCTCTTGAACGATAGGAGGGG
Found at i:892608 original size:42 final size:42
Alignment explanation
Indices: 892512--892610 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
892502 GCAGACGGGA
* * * * **
892512 CCTCTTGAACGATGACGGGGGCCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAATGATGAAGGGGGCCTCTTGAACGATAGGAGACG
*
892554 CTTCTTCG-ATGAT-AAGAGGGGCCTCTTGAACGATAGGAGACG
1 CCTCTT-GAATGATGAAG-GGGGCCTCTTGAACGATAGGAGACG
892596 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
892611 TAGGTGCATC
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
41 3 0.07
42 40 0.89
43 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.23
Consensus pattern (42 bp):
CCTCTTGAATGATGAAGGGGGCCTCTTGAACGATAGGAGACG
Found at i:894794 original size:20 final size:20
Alignment explanation
Indices: 894771--894817 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
894761 TTAAATTCGA
894771 AACGCGAAAAAGAAAATCGC
1 AACGCGAAAAAGAAAATCGC
*
894791 AACGCGAAAATGAAAATCGC
1 AACGCGAAAAAGAAAATCGC
*
894811 AATGCGA
1 AACGCGA
894818 TTTTATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.51, C:0.19, G:0.21, T:0.09
Consensus pattern (20 bp):
AACGCGAAAAAGAAAATCGC
Found at i:894836 original size:19 final size:20
Alignment explanation
Indices: 894814--894860 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
894804 AAATCGCAAT
894814 GCGATTTT-ATTTTCGCGTA
1 GCGATTTTCATTTTCGCGTA
*
894833 GCGATTTTCATTTTCGCGTT
1 GCGATTTTCATTTTCGCGTA
894853 GCGATTTT
1 GCGATTTT
894861 TGCGTTGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.13, C:0.17, G:0.21, T:0.49
Consensus pattern (20 bp):
GCGATTTTCATTTTCGCGTA
Found at i:895263 original size:15 final size:16
Alignment explanation
Indices: 895243--895279 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
895233 TTATAATTAT
895243 TATTTTA-TTGTTTTC-
1 TATTTTACTT-TTTTCA
895258 TATTTTACTTTTTTCA
1 TATTTTACTTTTTTCA
895274 TATTTT
1 TATTTT
895280 TATTTGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.73
Consensus pattern (16 bp):
TATTTTACTTTTTTCA
Found at i:895753 original size:21 final size:22
Alignment explanation
Indices: 895729--895771 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
895719 TTATATCTTC
*
895729 ATTTTCTTT-GTTTTTTTCTCT
1 ATTTTATTTCGTTTTTTTCTCT
*
895750 ATTTTATTTCTTTTTTTTCTCT
1 ATTTTATTTCGTTTTTTTCTCT
895772 CTAACACGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.77
Consensus pattern (22 bp):
ATTTTATTTCGTTTTTTTCTCT
Found at i:896175 original size:30 final size:29
Alignment explanation
Indices: 896134--896199 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 29
896124 AATTCTTTTA
*
896134 GTACTTTTTTTGA-CAAAAAGATAACTCTAG
1 GTACTTATTTTGACCAAAAA-AT-ACTCTAG
*
896164 GTACTTATTTTGACCAAAAAATACTTTAG
1 GTACTTATTTTGACCAAAAAATACTCTAG
896193 GTACTTA
1 GTACTTA
896200 ATAAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 13 0.39
30 14 0.42
31 6 0.18
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (29 bp):
GTACTTATTTTGACCAAAAAATACTCTAG
Found at i:896199 original size:29 final size:28
Alignment explanation
Indices: 896111--896199 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 28
896101 TTCCGACACC
* *
896111 TATTTTGACATAAAATTCTTTTA-GTACT
1 TATTTTGACAAAAAATAC-TTTAGGTACT
* *
896139 TTTTTTGACAAAAAGATAACTCTAGGTACT
1 TATTTTGACAAAAA-AT-ACTTTAGGTACT
896169 TATTTTGACCAAAAAATACTTTAGGTACT
1 TATTTTGA-CAAAAAATACTTTAGGTACT
896198 TA
1 TA
896200 ATAAAAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
28 12 0.24
29 18 0.35
30 15 0.29
31 6 0.12
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (28 bp):
TATTTTGACAAAAAATACTTTAGGTACT
Found at i:898131 original size:22 final size:20
Alignment explanation
Indices: 898085--898154 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
898075 ATGGGGTACT
* **
898085 GATACCGTATGAAAAGTATC
1 GATACCATATGAAGGGTATC
* *
898105 AATACCATGTGAATGAGGTATC
1 GATACCATATGAA-G-GGTATC
*
898127 GATACCTATATGGAGGGTATC
1 GATACC-ATATGAAGGGTATC
898148 GATACCA
1 GATACCA
898155 AGGAACATCG
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
20 11 0.28
21 12 0.31
22 11 0.28
23 5 0.13
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.26
Consensus pattern (20 bp):
GATACCATATGAAGGGTATC
Found at i:908395 original size:16 final size:16
Alignment explanation
Indices: 908374--908429 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
908364 AAATATGAAC
908374 TATATGTGATACATGA
1 TATATGTGATACATGA
* **
908390 TATATGTGTTAGGTGA
1 TATATGTGATACATGA
*
908406 TATATGTGACCACATGA
1 TATATGTGA-TACATGA
908423 TAATATG
1 T-ATATG
908430 ATATAATTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
16 21 0.68
17 5 0.16
18 5 0.16
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (16 bp):
TATATGTGATACATGA
Found at i:909067 original size:22 final size:23
Alignment explanation
Indices: 909025--909069 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
909015 AGTGCATATG
*
909025 TGTATTTGTGATATGAGATGATA
1 TGTACTTGTGATATGAGATGATA
*
909048 TGTACTTGTG-TATGATATGATA
1 TGTACTTGTGATATGAGATGATA
909070 GTAGTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.44
Consensus pattern (23 bp):
TGTACTTGTGATATGAGATGATA
Found at i:912104 original size:28 final size:27
Alignment explanation
Indices: 912048--912105 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
912038 GTTAACCTTT
**
912048 AATACTAATATTTAATATTTTTATAAA
1 AATACTAATATTTAATATTTAAATAAA
* *
912075 AATATTAAGTATTTAATATTTAAATTAA
1 AATACTAA-TATTTAATATTTAAATAAA
912103 AAT
1 AAT
912106 TAAATTTAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (27 bp):
AATACTAATATTTAATATTTAAATAAA
Found at i:916327 original size:49 final size:49
Alignment explanation
Indices: 916255--916353 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
916245 CATTTGCTAT
916255 TCATTTTCCATTCTGTGATCATCTCTTGTATTAAGGAAAAACCAGAGCA
1 TCATTTTCCATTCTGTGATCATCTCTTGTATTAAGGAAAAACCAGAGCA
916304 TCATTTTCCATTCTGTGATCATCTCTTGTATTAAGGAAAAACCAGAGCA
1 TCATTTTCCATTCTGTGATCATCTCTTGTATTAAGGAAAAACCAGAGCA
916353 T
1 T
916354 TGAATTCTCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.35
Consensus pattern (49 bp):
TCATTTTCCATTCTGTGATCATCTCTTGTATTAAGGAAAAACCAGAGCA
Found at i:919798 original size:35 final size:35
Alignment explanation
Indices: 919712--919805 Score: 118
Period size: 35 Copynumber: 2.7 Consensus size: 35
919702 CATAACCATA
* * * *
919712 AATTACATTCTAAACCCCAAAATCCAAAATACTTT
1 AATTACATTCTAAACCTCAAATTCTAAAATACTTC
*
919747 AATTACATTCTAAACCTTAAATTCTAAAATACTTC
1 AATTACATTCTAAACCTCAAATTCTAAAATACTTC
*
919782 AATTACA-TGTACAACCTCAAATTC
1 AATTACATTCTA-AACCTCAAATTC
919806 ATAATTCATT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
34 3 0.06
35 48 0.94
ACGTcount: A:0.44, C:0.23, G:0.01, T:0.32
Consensus pattern (35 bp):
AATTACATTCTAAACCTCAAATTCTAAAATACTTC
Found at i:920669 original size:35 final size:36
Alignment explanation
Indices: 920605--920682 Score: 122
Period size: 35 Copynumber: 2.2 Consensus size: 36
920595 GTTGGATATC
*
920605 TAATTGAAGTATTTTTAGAATTTGAGGTTTAGAATG
1 TAATTGAAGTATTTTTAGAATTTGAGGTTTAAAATG
* *
920641 TAATTGAAGTA-TTTTGGAATTTGGGGTTTAAAATG
1 TAATTGAAGTATTTTTAGAATTTGAGGTTTAAAATG
920676 TAATTGA
1 TAATTGA
920683 TGATTGTGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 28 0.72
36 11 0.28
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (36 bp):
TAATTGAAGTATTTTTAGAATTTGAGGTTTAAAATG
Found at i:924719 original size:21 final size:21
Alignment explanation
Indices: 924695--924740 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
924685 CGTTGCATTT
924695 TCGCAATGCGATAGTTGAAAA
1 TCGCAATGCGATAGTTGAAAA
**
924716 TCGCGTTGCGATAGTTGAAAA
1 TCGCAATGCGATAGTTGAAAA
924737 TCGC
1 TCGC
924741 GTTGCGATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (21 bp):
TCGCAATGCGATAGTTGAAAA
Found at i:924741 original size:21 final size:21
Alignment explanation
Indices: 924701--924748 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
924691 ATTTTCGCAA
924701 TGCGATAGTTGAAAATCGCGT
1 TGCGATAGTTGAAAATCGCGT
924722 TGCGATAGTTGAAAATCGCGT
1 TGCGATAGTTGAAAATCGCGT
924743 TGCGAT
1 TGCGAT
924749 GGTCTACAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (21 bp):
TGCGATAGTTGAAAATCGCGT
Found at i:924811 original size:20 final size:20
Alignment explanation
Indices: 924786--924852 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
924776 AATTCGTAAT
924786 GCGAATAAGTAAATCGCAAC
1 GCGAATAAGTAAATCGCAAC
** * *
924806 GCGAATTGGGAAAATCGCAAT
1 GCGAA-TAAGTAAATCGCAAC
924827 GCGAATAAGTAAATCGCAAC
1 GCGAATAAGTAAATCGCAAC
924847 GCGAAT
1 GCGAAT
924853 TGGGAAAATC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (20 bp):
GCGAATAAGTAAATCGCAAC
Found at i:924822 original size:21 final size:21
Alignment explanation
Indices: 924796--924871 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
924786 GCGAATAAGT
924796 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* ** *
924817 AAATCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
924837 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
*
924858 AAATCGCAATGCGA
1 AAATCGCAACGCGA
924872 TACTGACTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:924828 original size:41 final size:41
Alignment explanation
Indices: 924783--924871 Score: 178
Period size: 41 Copynumber: 2.2 Consensus size: 41
924773 CCCAATTCGT
924783 AATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGC
1 AATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGC
924824 AATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGC
1 AATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGC
924865 AATGCGA
1 AATGCGA
924872 TACTGACTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (41 bp):
AATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGC
Found at i:924884 original size:41 final size:41
Alignment explanation
Indices: 924798--924932 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
924788 GAATAAGTAA
* *
924798 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
924839 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
924880 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
924921 TTCGCAACGCGA
1 ATCGCAACGCGA
924933 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:924885 original size:20 final size:20
Alignment explanation
Indices: 924860--924954 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
924850 AATTGGGAAA
*
924860 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
924880 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
924901 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
924921 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
924941 TTCGCAACGCGATA
1 ATCGCAACGCGATA
924955 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:925170 original size:22 final size:22
Alignment explanation
Indices: 925142--925185 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
925132 CACTCTTTCA
*
925142 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
* *
925164 CCCATCTCTGGCAAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
925186 TATCTCCATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.43, G:0.14, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACAAAATCCGTC
Found at i:925474 original size:20 final size:20
Alignment explanation
Indices: 925449--925486 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
925439 CGATTCTCTC
925449 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
925469 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
925487 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:926824 original size:18 final size:18
Alignment explanation
Indices: 926803--926847 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
926793 TCCACTTCGG
*
926803 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
926821 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
926839 GAGCCATCA
1 GAGCCATCA
926848 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:927383 original size:19 final size:20
Alignment explanation
Indices: 927340--927395 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
927330 CACAACACGA
927340 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
927360 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
**
927379 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
927396 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:927428 original size:27 final size:31
Alignment explanation
Indices: 927368--927439 Score: 98
Period size: 33 Copynumber: 2.4 Consensus size: 31
927358 GGAAATGGCT
927368 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCG--ACGACAAA
927401 ATCGCAATGCGAAATG-AAATCG-C-A-AAA
1 ATCGCAATGCGAAATGAAAATCGACGACAAA
927428 ATCGCAATGCGA
1 ATCGCAATGCGA
927440 TTTGTGTTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
27 15 0.38
28 1 0.03
29 1 0.03
32 6 0.15
33 16 0.41
ACGTcount: A:0.46, C:0.21, G:0.19, T:0.14
Consensus pattern (31 bp):
ATCGCAATGCGAAATGAAAATCGACGACAAA
Found at i:927470 original size:14 final size:14
Alignment explanation
Indices: 927451--927508 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
927441 TTGTGTTTCG
927451 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
927465 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
927481 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
927497 CGTTACGATTTT
1 CGTTGCGATTTT
927509 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:927489 original size:32 final size:33
Alignment explanation
Indices: 927446--927524 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
927436 GCGATTTGTG
* *
927446 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTACGATTTTCA
927478 TTTCGCATTGCGATTTTGTCGTTACGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTACGATTTTCA
927511 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
927525 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 25 0.57
33 19 0.43
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTACGATTTTCA
Found at i:927558 original size:19 final size:19
Alignment explanation
Indices: 927508--927558 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
927498 GTTACGATTT
*
927508 TCATTTCGCATTGCGATAG
1 TCATTTCGCGTTGCGATAG
*
927527 CCATTTCCGCGTTGCGATAG
1 TCATTT-CGCGTTGCGATAG
927547 TCATTTCGCGTT
1 TCATTTCGCGTT
927559 TCGAATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (19 bp):
TCATTTCGCGTTGCGATAG
Found at i:929449 original size:14 final size:14
Alignment explanation
Indices: 929430--929465 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
929420 ATTGTTTAAT
929430 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
929444 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
929458 TGATTTGT
1 TGATTTGT
929466 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:929591 original size:14 final size:14
Alignment explanation
Indices: 929572--929625 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
929562 CGAAATGGCT
929572 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
929586 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
*
929605 ATCACAACGAGAAA
1 ATCGCAACGAGAAA
929619 ATCGCAA
1 ATCGCAA
929626 TGCGATTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.50, C:0.20, G:0.19, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:929598 original size:33 final size:33
Alignment explanation
Indices: 929553--929630 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 33
929543 AAAACAGACT
* *** *
929553 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCACAACGAGAAA
929586 ATCGCAATGCGAAATGAAAATCACAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCACAACGAGAAA
929619 ATCGCAATGCGA
1 ATCGCAATGCGA
929631 TTTTCATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCACAACGAGAAA
Found at i:929675 original size:20 final size:20
Alignment explanation
Indices: 929649--929705 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
929639 TCGCATTGCG
*
929649 ATTTTCTCATTGCGATAACC
1 ATTTTCTCGTTGCGATAACC
* *
929669 TTTTTCTCGTTGCGATAGCC
1 ATTTTCTCGTTGCGATAACC
*
929689 ATTTTCGCGTTGCGATA
1 ATTTTCTCGTTGCGATA
929706 GTCAAATGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.42
Consensus pattern (20 bp):
ATTTTCTCGTTGCGATAACC
Found at i:930799 original size:24 final size:24
Alignment explanation
Indices: 930743--930801 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
930733 AGTCAGTATT
* *
930743 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* *
930767 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
930791 CGAATTTTGAT
1 CGAAATTTGAT
930802 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:930993 original size:12 final size:12
Alignment explanation
Indices: 930976--931000 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
930966 ATATAATCCT
930976 GAAGAAGAAAAA
1 GAAGAAGAAAAA
930988 GAAGAAGAAAAA
1 GAAGAAGAAAAA
931000 G
1 G
931001 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:933317 original size:19 final size:19
Alignment explanation
Indices: 933295--933353 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
933285 GGAAATTACT
933295 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
933314 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
933328 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
933347 ATCGCAA
1 ATCGCAA
933354 CGCTAATTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 9 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 16 0.52
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:933537 original size:14 final size:14
Alignment explanation
Indices: 933518--933550 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
933508 CATCAATTAA
933518 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
933532 ACAAATCACCTTTT
1 ACAAATCAACTTTT
933546 ACAAA
1 ACAAA
933551 CCAATTAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:937125 original size:33 final size:33
Alignment explanation
Indices: 937068--937166 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
937058 ACGAGATAAT
937068 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
* *
937102 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
* **
937135 GACAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
937167 CGAAATGAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
33 44 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.25, G:0.24, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:937160 original size:19 final size:19
Alignment explanation
Indices: 937043--937265 Score: 250
Period size: 19 Copynumber: 12.1 Consensus size: 19
937033 TCTTTTGGTT
*
937043 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
937062 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
937082 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
937100 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
937116 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
937134 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
937149 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
937168 GAAATGAAAATCGCAACTGC
1 GAAATGAAAATCGCAAC-GC
*
937188 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
937207 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
937226 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
937245 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
937264 GA
1 GA
937266 TTTTGGTTTC
Statistics
Matches: 176, Mismatches: 15, Indels: 26
0.81 0.07 0.12
Matches are distributed among these distances:
14 19 0.11
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.02
19 100 0.57
20 45 0.26
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:937228 original size:58 final size:57
Alignment explanation
Indices: 937043--937265 Score: 232
Period size: 58 Copynumber: 4.0 Consensus size: 57
937033 TCTTTTGGTT
* * * **
937043 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGCGGAAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAACGC-GAAATAAAAATCGCAACGC
* ** * * *
937100 G--A-GAGAATCGCAACGCGAAATGACTATCGCGAC-C---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAAAATCGCAACGC
937149 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACTGCGAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAAC-GCGAAATAAAAATCGCAACGC
* *
937207 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAAAATCGCAACGC
937264 GA
1 GA
937266 TTTTGGTTTC
Statistics
Matches: 141, Mismatches: 14, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
47 10 0.07
48 1 0.01
49 2 0.01
51 1 0.01
52 28 0.20
53 12 0.09
54 15 0.11
55 1 0.01
57 23 0.16
58 48 0.34
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (57 bp):
GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAAAATCGCAACGC
Found at i:937295 original size:20 final size:20
Alignment explanation
Indices: 937272--937328 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
937262 GCGATTTTGG
937272 TTTCGCGTTGCGATTTTTTA
1 TTTCGCGTTGCGATTTTTTA
**
937292 TTTCGCGTTGCGA-TAGTTA
1 TTTCGCGTTGCGATTTTTTA
937311 TTTCCGCGTTGCGATTTT
1 TTT-CGCGTTGCGATTTT
937329 CATTCTCGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 7 0.23
20 23 0.74
21 1 0.03
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.49
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTTTA
Found at i:937896 original size:20 final size:20
Alignment explanation
Indices: 937847--937960 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
937837 CGCTATGTAA
* * *
937847 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
937867 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
937887 ATCTCATTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
937908 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
*
937928 ATTGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
937948 ATCGCATTGCGAT
1 ATCGCATTGCGAT
937961 TTTCTCAATT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
19 3 0.04
20 61 0.77
21 13 0.16
22 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:937979 original size:41 final size:41
Alignment explanation
Indices: 937949--938041 Score: 141
Period size: 41 Copynumber: 2.3 Consensus size: 41
937939 ATAGTCAGTA
* * *
937949 TCGCATTGCGATTTTCTCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
* *
937990 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
938031 TCGCATTGCGA
1 TCGCATTGCGA
938042 ATTGGGAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:937979 original size:61 final size:61
Alignment explanation
Indices: 937847--937981 Score: 164
Period size: 61 Copynumber: 2.2 Consensus size: 61
937837 CGCTATGTAA
* * * * * *
937847 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCATTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCTAAT
* * * *
937908 ATCGCATTGCGATAGTAAGTATTGCATTGCGATAGTCAGTATCGCATTGCGATTTTCTCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCT-AAT
937970 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
937982 TTACTTATTC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
61 60 0.97
62 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCTAAT
Found at i:937993 original size:20 final size:20
Alignment explanation
Indices: 937949--938041 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
937939 ATAGTCAGTA
*
937949 TCGCATTGCGATTTTCTCAAT
1 TCGCATTGCGATTTACT-AAT
* *
937970 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
* *
937990 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTAAT
* *
938011 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
938031 TCGCATTGCGA
1 TCGCATTGCGA
938042 ATTGGGAAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.47
21 31 0.53
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (20 bp):
TCGCATTGCGATTTACTAAT
Found at i:937996 original size:61 final size:62
Alignment explanation
Indices: 937868--938001 Score: 157
Period size: 61 Copynumber: 2.2 Consensus size: 62
937858 AAAGTCAGAA
* * * * *
937868 TCGCGTTGCGAAAGTCAGTATCTCATTGCGATTTTGTATTATCGCATTGCGATAGTAAGTAT
1 TCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCTAATATCGCATTGCGATAGTAAGTAT
* * **
937930 T-GCATTGCGATAGTCAGTATCGCATTGCGATTTTCTCAAT-TCGCGTTGCGAT-TTACTTAT
1 TCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCT-AATATCGCATTGCGATAGTAAGTAT
937990 TCGCATTGCGAT
1 TCGCATTGCGAT
938002 TTTCCCAATT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
60 6 0.10
61 52 0.85
62 3 0.05
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (62 bp):
TCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCTAATATCGCATTGCGATAGTAAGTAT
Found at i:945286 original size:15 final size:15
Alignment explanation
Indices: 945266--945297 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
945256 AAAATCTTTC
*
945266 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTAGAT
945281 TTTCCCGTTCTAGAT
1 TTTCCCGTTCTAGAT
945296 TT
1 TT
945298 GGATCTGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.25, G:0.12, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTAGAT
Found at i:947619 original size:18 final size:19
Alignment explanation
Indices: 947584--947621 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
947574 CACGGAATGT
947584 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
947604 AAGATTACCA-GGGAATAA
1 AAGATTACCAGGGGAATAA
947622 GATTACTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.18
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:954118 original size:2 final size:2
Alignment explanation
Indices: 954113--954170 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
954103 CCTATGTGTG
954113 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
954155 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
954171 ATGCAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:959714 original size:14 final size:16
Alignment explanation
Indices: 959680--959721 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
959670 GATTAAGGTT
959680 AGAGAATTTGGGAGGG
1 AGAGAATTTGGGAGGG
959696 AGAGAATTTGGGAGGG
1 AGAGAATTTGGGAGGG
959712 AGAGAATTTG
1 AGAGAATTTG
959722 TTAGGCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.33, C:0.00, G:0.45, T:0.21
Consensus pattern (16 bp):
AGAGAATTTGGGAGGG
Found at i:969590 original size:5 final size:5
Alignment explanation
Indices: 969580--969604 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
969570 ACTTCATGCT
969580 TTGCA TTGCA TTGCA TTGCA TTGCA
1 TTGCA TTGCA TTGCA TTGCA TTGCA
969605 CTGATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (5 bp):
TTGCA
Found at i:973045 original size:37 final size:36
Alignment explanation
Indices: 972941--973055 Score: 128
Period size: 36 Copynumber: 3.2 Consensus size: 36
972931 AAATGTTTCA
* *
972941 TCTCGCTAGAGACATTTT-TCTAAAAATAAA-ATTG
1 TCTCGCTTGAGACATTTTCTCTAAAAATAAATTTTG
* **
972975 ATCTCACTTGAGATTGTTTTCT-TAAAAATAAATTTTG
1 -TCTCGCTTGAGA-CATTTTCTCTAAAAATAAATTTTG
*
973012 TCTCGTTTGAGACAATTTTCTCTAAAAATAAATTTTG
1 TCTCGCTTGAGAC-ATTTTCTCTAAAAATAAATTTTG
973049 TCTCGCT
1 TCTCGCT
973056 AGACGTCCTC
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
35 10 0.15
36 30 0.46
37 25 0.38
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (36 bp):
TCTCGCTTGAGACATTTTCTCTAAAAATAAATTTTG
Found at i:973308 original size:140 final size:138
Alignment explanation
Indices: 973053--973326 Score: 377
Period size: 140 Copynumber: 2.0 Consensus size: 138
973043 ATTTTGTCTC
* * *
973053 GCTAGACGTCCTCATCACGTAGGAAAAATGTCATCCACCGAGCATATCTCCTCATCACGTAGGAG
1 GCTAGACGTCCTCATCACGTAGGAAAAATATCATCCACCGACCAGATCTCCTCATCACGTAGGAG
* ** * * *
973118 CAGCGTCATTCTCAAATAACCAGACTTCCTCATCATGTTGGAACCATGTTGTCCCCCAAATTATC
66 CAGAGTCACCCTCAAATAACCAGACTTCCTCATCACGTAGGAACCATGTTGT-CCCCAAATT-TA
973183 CCTAAAGATA
129 CCTAAAGATA
* *
973193 GCTAGACGTCCTCATCACGTAGGAACAATATCATCCACCGACCAGATCTCTTCATCACGTAGGAG
1 GCTAGACGTCCTCATCACGTAGGAAAAATATCATCCACCGACCAGATCTCCTCATCACGTAGGAG
* * * * * *
973258 CATAGTCACCCTTAAATAACCAGATTTTCTCATCACGTAGGAACCTTGTTGTCTCCAAATTTACC
66 CAGAGTCACCCTCAAATAACCAGACTTCCTCATCACGTAGGAACCATGTTGTCCCCAAATTTACC
973323 TAAA
131 TAAA
973327 AACGACCAGA
Statistics
Matches: 117, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
138 7 0.06
139 8 0.07
140 102 0.87
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (138 bp):
GCTAGACGTCCTCATCACGTAGGAAAAATATCATCCACCGACCAGATCTCCTCATCACGTAGGAG
CAGAGTCACCCTCAAATAACCAGACTTCCTCATCACGTAGGAACCATGTTGTCCCCAAATTTACC
TAAAGATA
Found at i:973665 original size:12 final size:13
Alignment explanation
Indices: 973647--973687 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
973637 ATTAATTAAA
973647 TATTATTATTATC
1 TATTATTATTATC
973660 -ATTATTATTA-C
1 TATTATTATTATC
* *
973671 TAATATTATTATT
1 TATTATTATTATC
973684 TATT
1 TATT
973688 TTCATATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 1 0.04
12 19 0.83
13 3 0.13
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTATTATTATC
Found at i:973667 original size:15 final size:15
Alignment explanation
Indices: 973647--973697 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
973637 ATTAATTAAA
973647 TATTATTATTATCAT
1 TATTATTATTATCAT
*
973662 TATTATTACTAAT-AT
1 TATTATTA-TTATCAT
*
973677 TATTATTTATTTTCA-
1 TATTA-TTATTATCAT
973692 TATTAT
1 TATTAT
973698 AGTTAGCCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
14 1 0.03
15 22 0.73
16 7 0.23
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATTATTATCAT
Found at i:974490 original size:31 final size:32
Alignment explanation
Indices: 974452--974576 Score: 128
Period size: 35 Copynumber: 3.7 Consensus size: 32
974442 AAATGAACAA
*
974452 TTGAATCGAAAGTGATTATGCTT-C-CGTTCAC
1 TTGAATCGAAAGTG-TGATGCTTCCTCGTTCAC
* *
974483 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCTTC
1 TTGAATCGAAAGTG-TGATGCTTCC--TCGTTC-AC
974519 TTGAATCGAAAGTGTCGATGCTTCCTTCTGTTCAC
1 TTGAATCGAAAGTGT-GATGCTTCC-TC-GTTCAC
974554 TTGAATCGAAAGTGTCGATGCTT
1 TTGAATCGAAAGTGT-GATGCTT
974577 TCTTTCGTTC
Statistics
Matches: 81, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
31 20 0.25
32 1 0.01
35 32 0.40
36 28 0.35
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (32 bp):
TTGAATCGAAAGTGTGATGCTTCCTCGTTCAC
Found at i:974522 original size:36 final size:36
Alignment explanation
Indices: 974482--974591 Score: 170
Period size: 36 Copynumber: 3.1 Consensus size: 36
974472 CTTCCGTTCA
*
974482 CTTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCTT
1 CTTGAATCGAAAGTGTCGATGCTTCCTTTCGTTCTT
*
974518 CTTGAATCGAAAGTGTCGATGCTTCC-TTCTGTTC-A
1 CTTGAATCGAAAGTGTCGATGCTTCCTTTC-GTTCTT
*
974553 CTTGAATCGAAAGTGTCGATGCTTTCTTTCGTTCTT
1 CTTGAATCGAAAGTGTCGATGCTTCCTTTCGTTCTT
974589 CTT
1 CTT
974592 ATTCACCTTC
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
35 32 0.48
36 35 0.52
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (36 bp):
CTTGAATCGAAAGTGTCGATGCTTCCTTTCGTTCTT
Found at i:974564 original size:35 final size:35
Alignment explanation
Indices: 974472--974576 Score: 158
Period size: 35 Copynumber: 3.0 Consensus size: 35
974462 AGTGATTATG
* *
974472 CTTCCGTTCACTTGAATCGAAAGTGCCGATGCTTC
1 CTTCTGTTCACTTGAATCGAAAGTGTCGATGCTTC
*
974507 CTT-TCGTTCTTCTTGAATCGAAAGTGTCGATGCTTC
1 CTTCT-GTTC-ACTTGAATCGAAAGTGTCGATGCTTC
974543 CTTCTGTTCACTTGAATCGAAAGTGTCGATGCTT
1 CTTCTGTTCACTTGAATCGAAAGTGTCGATGCTT
974577 TCTTTCGTTC
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
35 31 0.49
36 31 0.49
37 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (35 bp):
CTTCTGTTCACTTGAATCGAAAGTGTCGATGCTTC
Found at i:975971 original size:35 final size:35
Alignment explanation
Indices: 975915--976053 Score: 181
Period size: 35 Copynumber: 3.9 Consensus size: 35
975905 AAATGAACAA
* **
975915 TTGAATCGAAAATGCTTATGCTTCCTTTCGTTCAC
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCAC
* *
975950 TTGAATCGAAAGTGCCGATGCTTCATTTCGTTCTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC-AC
*
975986 TTGAATCGAAAGTGTCGATGCTTCC-TTCTGTTCAC
1 TTGAATCGAAAGTGCCGATGCTTCCTTTC-GTTCAC
* *
976021 TTGAATCGAAAGTGTCGATGCTTTCTTTCGTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC
976054 TTCTTATTCA
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
35 61 0.66
36 31 0.34
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.40
Consensus pattern (35 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCAC
Found at i:976031 original size:71 final size:71
Alignment explanation
Indices: 975915--976058 Score: 213
Period size: 71 Copynumber: 2.0 Consensus size: 71
975905 AAATGAACAA
*
975915 TTGAATCGAAAATGCTTATGCTTCCTTTCGTTCACTTGAATCGAAAGTGCCGATGC-TTCATTTC
1 TTGAATCGAAAATGCTGATGCTTCCTTTCGTTCACTTGAATCGAAAGTGCCGATGCTTTC-TTTC
975979 GTTCTTC
65 GTTCTTC
* *
975986 TTGAATCGAAAGTG-TCGATGCTTCC-TTCTGTTCACTTGAATCGAAAGTGTCGATGCTTTCTTT
1 TTGAATCGAAAATGCT-GATGCTTCCTTTC-GTTCACTTGAATCGAAAGTGCCGATGCTTTCTTT
976049 CGTTCTTC
64 CGTTCTTC
976057 TT
1 TT
976059 ATTCACCTTC
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
70 4 0.06
71 60 0.90
72 3 0.04
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.41
Consensus pattern (71 bp):
TTGAATCGAAAATGCTGATGCTTCCTTTCGTTCACTTGAATCGAAAGTGCCGATGCTTTCTTTCG
TTCTTC
Found at i:978842 original size:33 final size:32
Alignment explanation
Indices: 978804--978871 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
978794 ATTTTAAATA
* * * *
978804 TTTTATACTAGTTTGATGAAATTTAATTATCAT
1 TTTTATAATAATTT-ATCAAATTTAATGATCAT
*
978837 TTTTATAATAATTTATCAAGTTTAATGATCAT
1 TTTTATAATAATTTATCAAATTTAATGATCAT
978869 TTT
1 TTT
978872 ATATTTTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.34, C:0.06, G:0.07, T:0.53
Consensus pattern (32 bp):
TTTTATAATAATTTATCAAATTTAATGATCAT
Found at i:978938 original size:144 final size:144
Alignment explanation
Indices: 978786--979074 Score: 560
Period size: 144 Copynumber: 2.0 Consensus size: 144
978776 AATAATAAAT
978786 TTTAATAAATTTTAAATATTTTATACTAGTTTGATGAAATTTAATTATCATTTTTATAATAATTT
1 TTTAATAAATTTTAAATATTTTATACTAGTTTGATGAAATTTAATTATCATTTTTATAATAATTT
978851 ATCAAGTTTAATGATCATTTTATATTTTATTTAAATCCAAGGGTAGAAAGAATCTTTTCAATATA
66 ATCAAGTTTAATGATCATTTTATATTTTATTTAAATCCAAGGGTAGAAAGAATCTTTTCAATATA
978916 ATTTAATAATCATA
131 ATTTAATAATCATA
978930 TTTAATAAATTTTAAATATTTTATACTAGTTTGATGAAATTTAATTATCATTTTTATAATAATTT
1 TTTAATAAATTTTAAATATTTTATACTAGTTTGATGAAATTTAATTATCATTTTTATAATAATTT
* *
978995 ATCAAGTTTAATGATCATTTTATATTTTTTTTAAATCCAATGGTAGAAAGAATCTTTTCAATATA
66 ATCAAGTTTAATGATCATTTTATATTTTATTTAAATCCAAGGGTAGAAAGAATCTTTTCAATATA
979060 ATTTAATAATCATA
131 ATTTAATAATCATA
979074 T
1 T
979075 GTGTATTTTA
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 143 1.00
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (144 bp):
TTTAATAAATTTTAAATATTTTATACTAGTTTGATGAAATTTAATTATCATTTTTATAATAATTT
ATCAAGTTTAATGATCATTTTATATTTTATTTAAATCCAAGGGTAGAAAGAATCTTTTCAATATA
ATTTAATAATCATA
Found at i:978986 original size:33 final size:32
Alignment explanation
Indices: 978948--979015 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
978938 ATTTTAAATA
* * * *
978948 TTTTATACTAGTTTGATGAAATTTAATTATCAT
1 TTTTATAATAATTT-ATCAAATTTAATGATCAT
*
978981 TTTTATAATAATTTATCAAGTTTAATGATCAT
1 TTTTATAATAATTTATCAAATTTAATGATCAT
979013 TTT
1 TTT
979016 ATATTTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.34, C:0.06, G:0.07, T:0.53
Consensus pattern (32 bp):
TTTTATAATAATTTATCAAATTTAATGATCAT
Found at i:980233 original size:3 final size:3
Alignment explanation
Indices: 980225--980323 Score: 198
Period size: 3 Copynumber: 33.0 Consensus size: 3
980215 TAATTTAGAG
980225 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
980273 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
980321 AGA
1 AGA
980324 GAGAGGAGGA
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 96 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:980332 original size:3 final size:3
Alignment explanation
Indices: 980326--980382 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
980316 GAAGAAGAGA
980326 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
980374 GAG GAG GAG
1 GAG GAG GAG
980383 TTAACTGTCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:980480 original size:53 final size:53
Alignment explanation
Indices: 980397--980501 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 53
980387 CTGTCACGTC
***
980397 AACAAAAATTAACGGTTACTAAATGGGAATTAAAAGTTTGATGATTATATTGT
1 AACAAAAATTAACGGTTACTAAACAAGAATTAAAAGTTTGATGATTATATTGT
980450 AACAAAAATTAACGGTTACTAAACAAGAATTAAAAGTTTGATGATTATATTG
1 AACAAAAATTAACGGTTACTAAACAAGAATTAAAAGTTTGATGATTATATTG
980502 CAAGTTTCAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.32
Consensus pattern (53 bp):
AACAAAAATTAACGGTTACTAAACAAGAATTAAAAGTTTGATGATTATATTGT
Found at i:982895 original size:20 final size:20
Alignment explanation
Indices: 982870--982908 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
982860 TAGTTCACGA
982870 AATGTAAGATTACAAGTGAG
1 AATGTAAGATTACAAGTGAG
982890 AATGTAAGATTACAAGTGA
1 AATGTAAGATTACAAGTGA
982909 ATAAGATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.23, T:0.26
Consensus pattern (20 bp):
AATGTAAGATTACAAGTGAG
Found at i:982915 original size:16 final size:18
Alignment explanation
Indices: 982873--982918 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
982863 TTCACGAAAT
982873 GTAAGATTACAAGTGAGAA
1 GTAAGATTACAAGT-AGAA
982892 TGTAAGATTACAAGT-GAA
1 -GTAAGATTACAAGTAGAA
982910 -TAAGATTAC
1 GTAAGATTAC
982919 TAGGAATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.35
18 3 0.12
20 14 0.54
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.26
Consensus pattern (18 bp):
GTAAGATTACAAGTAGAA
Found at i:983091 original size:38 final size:37
Alignment explanation
Indices: 983049--983124 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 37
983039 GTTTTTTTAA
983049 TAAGTTCGA-AAATATTTA-TATATTTTCTTTAAAAAATT
1 TAAGTTC-ATAAA-ATTTATTATATTTT-TTTAAAAAATT
*
983087 TAAGTTCATAAAATTTATTTATATTTTTTTATAAAATT
1 TAAGTTCATAAAATTTA-TTATATTTTTTTAAAAAATT
983125 GAAAATATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
37 6 0.18
38 20 0.59
39 8 0.24
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (37 bp):
TAAGTTCATAAAATTTATTATATTTTTTTAAAAAATT
Found at i:1008652 original size:19 final size:18
Alignment explanation
Indices: 1008625--1008697 Score: 62
Period size: 18 Copynumber: 4.1 Consensus size: 18
1008615 AAGAAGAAAT
*
1008625 AAAAGAAAAAAAATGAGAA
1 AAAACAAAAAAAATG-GAA
**
1008644 AAAACAAAAATGATGGAA
1 AAAACAAAAAAAATGGAA
1008662 AAAACAAAAAGAAA--G-A
1 AAAACAAAAA-AAATGGAA
* *
1008678 AAAAGAAGAAAAATGGAA
1 AAAACAAAAAAAATGGAA
1008696 AA
1 AA
1008698 GGGAAGAGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
15 3 0.07
16 9 0.21
17 2 0.05
18 16 0.37
19 13 0.30
ACGTcount: A:0.75, C:0.03, G:0.16, T:0.05
Consensus pattern (18 bp):
AAAACAAAAAAAATGGAA
Found at i:1008681 original size:18 final size:18
Alignment explanation
Indices: 1008618--1008681 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 18
1008608 TTGCTTGAAG
*
1008618 AAGAAATAAAAGAAAAA-A
1 AAGAAA-AAAACAAAAAGA
1008636 AATGAGAAAAAACAAAAATG-
1 AA-GA-AAAAAACAAAAA-GA
* *
1008656 ATGGAAAAAACAAAAAGA
1 AAGAAAAAAACAAAAAGA
1008674 AAGAAAAA
1 AAGAAAAA
1008682 GAAGAAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
17 1 0.03
18 20 0.56
19 12 0.33
20 3 0.08
ACGTcount: A:0.77, C:0.03, G:0.14, T:0.06
Consensus pattern (18 bp):
AAGAAAAAAACAAAAAGA
Found at i:1008697 original size:26 final size:25
Alignment explanation
Indices: 1008667--1008724 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 25
1008657 TGGAAAAAAC
1008667 AAAAAGAAAGAAAAAGAAGAAAAATGG
1 AAAAAGAAAGAAAAA-AAGAAAAAT-G
* * * *
1008694 AAAAGGGAAGAGAAAATGAAAAATG
1 AAAAAGAAAGAAAAAAAGAAAAATG
1008719 AAAAAG
1 AAAAAG
1008725 GAAAAATGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 6 0.23
26 8 0.31
27 12 0.46
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (25 bp):
AAAAAGAAAGAAAAAAAGAAAAATG
Found at i:1009946 original size:51 final size:51
Alignment explanation
Indices: 1009886--1010235 Score: 610
Period size: 51 Copynumber: 6.9 Consensus size: 51
1009876 AATTCGTTTG
*
1009886 TTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCA
1 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCA
* *
1009937 TTGAAGATTGAGTCCTATACTCTCTGAATAAATAGGGAGCGGACAAGTTCG
1 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCA
*
1009988 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAATTCA
1 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCA
*
1010039 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCG
1 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCA
1010090 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCA
1 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCA
* *
1010141 TTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCG
1 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCA
* * *
1010192 TTGAAGATTGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGAC
1 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
1010236 CCGTTTTGTT
Statistics
Matches: 286, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 286 1.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (51 bp):
TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCA
Found at i:1010277 original size:56 final size:56
Alignment explanation
Indices: 1010150--1010503 Score: 347
Period size: 56 Copynumber: 6.4 Consensus size: 56
1010140 ATTGAAGATT
* * * ** *
1010150 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAG-TTCGTTGAAGA---TT-
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGAACCCGTTTTGTTGAAGATTGTTC
* *
1010201 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTGTTGAAAATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGAACCCGTTTTGTTGAAGATTGTTC
* *
1010257 GAGTTCTATACTTTCTGAAGGAATAGAGAGCGAACCCATTTTGTTGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGAACCCGTTTTGTTGAAGATTGTTC
* * * *
1010313 GGGTTCTATACTCCCTGAACGG-ATAGGGAGCGAACCCGTTTTGTTGAAGATTGTTA
1 GAGTTCTATACTCTCTGAA-GGAATAGAGAGCGAACCCGTTTTGTTGAAGATTGTTC
* * * *
1010369 GAGTTCTATACTCCCTGAACGG-ATAGGGAGCGAACCCGTTTT-ATGAAAATTGTTC
1 GAGTTCTATACTCTCTGAA-GGAATAGAGAGCGAACCCGTTTTGTTGAAGATTGTTC
* * * * * *
1010424 AAG-TCTTATACTCTCTGAATGAATAGAAAGC-AGACACATTTT-ATGAAGATTGTTC
1 GAGTTC-TATACTCTCTGAAGGAATAGAGAGCGA-ACCCGTTTTGTTGAAGATTGTTC
1010479 GAG-TCTTATACT-TCCTGAAGGAATA
1 GAGTTC-TATACTCT-CTGAAGGAATA
1010504 CGGAGCAGAC
Statistics
Matches: 263, Mismatches: 30, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
51 34 0.13
52 9 0.03
54 5 0.02
55 73 0.28
56 140 0.53
57 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (56 bp):
GAGTTCTATACTCTCTGAAGGAATAGAGAGCGAACCCGTTTTGTTGAAGATTGTTC
Found at i:1021048 original size:30 final size:30
Alignment explanation
Indices: 1021012--1021070 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
1021002 CTTTAATGAT
*
1021012 GAAAGCATATATTCTCCTCCAATATATGGA
1 GAAAGCATATATTCTCCGCCAATATATGGA
*
1021042 GAAAGCATATATTCTCCGCCAATCTATGG
1 GAAAGCATATATTCTCCGCCAATATATGG
1021071 CCAAATTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (30 bp):
GAAAGCATATATTCTCCGCCAATATATGGA
Found at i:1022202 original size:33 final size:33
Alignment explanation
Indices: 1022165--1022227 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
1022155 TCATTCACAC
1022165 TATATATACACTAAAAGAGGTGTCAATGAATAG
1 TATATATACACTAAAAGAGGTGTCAATGAATAG
1022198 TATATATACACTAAAAGAGGTGTCAATGAA
1 TATATATACACTAAAAGAGGTGTCAATGAA
1022228 CTTACTATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (33 bp):
TATATATACACTAAAAGAGGTGTCAATGAATAG
Found at i:1030157 original size:36 final size:36
Alignment explanation
Indices: 1030073--1030297 Score: 337
Period size: 36 Copynumber: 6.3 Consensus size: 36
1030063 AAAGATGAAC
*
1030073 ACTTGAACCGGAAGTGCCGATGCTT-CCTCCCGTTC-
1 ACTTGAATCGGAAGTGCCGATGCTTCCCT-CCGTTCG
*
1030108 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
*
1030144 ATTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
* *
1030180 ATTTGAATCGGAAGTGTCGATGCTTCCCTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
* *
1030216 ACTTGAATCAGAAGTGCCGATGCTTCCCTCTGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
** *
1030252 ACTTGAATCGGAAGTGCTAATGCTTCCCTCTGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
1030288 ACTTGAATCG
1 ACTTGAATCG
1030298 ATGCAGACTT
Statistics
Matches: 176, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
35 30 0.17
36 146 0.83
ACGTcount: A:0.18, C:0.28, G:0.24, T:0.31
Consensus pattern (36 bp):
ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
Found at i:1032220 original size:21 final size:21
Alignment explanation
Indices: 1032179--1032220 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1032169 ATAAATTGTG
* *
1032179 TATCGATGCACTGCTATAGTA
1 TATCGATGCACTACTACAGTA
*
1032200 TATCGATGTACTACTACAGTA
1 TATCGATGCACTACTACAGTA
1032221 CTACTACAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (21 bp):
TATCGATGCACTACTACAGTA
Found at i:1033061 original size:37 final size:37
Alignment explanation
Indices: 1033017--1033117 Score: 139
Period size: 37 Copynumber: 2.7 Consensus size: 37
1033007 ATATAATCAG
*
1033017 TCCATATGTCCCGAAGAACATAGGTAATCTATAACTA
1 TCCATATGTCCCGAAGAACATAGGTAATATATAACTA
* * * * *
1033054 TCCATATGTCTCGAAAAACATAGGTAATATGTATCTG
1 TCCATATGTCCCGAAGAACATAGGTAATATATAACTA
*
1033091 TCCATATATCCCGAAGAACATAGGTAA
1 TCCATATGTCCCGAAGAACATAGGTAA
1033118 CCCTCGACTC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (37 bp):
TCCATATGTCCCGAAGAACATAGGTAATATATAACTA
Found at i:1033465 original size:2 final size:2
Alignment explanation
Indices: 1033458--1033491 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1033448 TATTCTTATC
1033458 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1033492 GTCATCTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1036138 original size:8 final size:8
Alignment explanation
Indices: 1036125--1036149 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1036115 AACTCTATGA
1036125 AATATTTT
1 AATATTTT
1036133 AATATTTT
1 AATATTTT
1036141 AATATTTT
1 AATATTTT
1036149 A
1 A
1036150 CTCTATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
AATATTTT
Found at i:1037613 original size:18 final size:19
Alignment explanation
Indices: 1037574--1037614 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
1037564 ATTTAAAAAT
* *
1037574 TAAATTAATATGAATGAGA
1 TAAAATAATATGAATGAAA
1037593 TAAAATAATAT-AATGAAA
1 TAAAATAATATGAATGAAA
1037611 TAAA
1 TAAA
1037615 CAATATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (19 bp):
TAAAATAATATGAATGAAA
Found at i:1037621 original size:17 final size:18
Alignment explanation
Indices: 1037580--1037621 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
1037570 AAATTAAATT
* *
1037580 AATATGAATGAGATAAAAT
1 AATAT-AATGAAATAAAAC
1037599 AATATAATGAAAT-AAAC
1 AATATAATGAAATAAAAC
1037616 AATATA
1 AATATA
1037622 TAAACTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 9 0.43
18 7 0.33
19 5 0.24
ACGTcount: A:0.62, C:0.02, G:0.10, T:0.26
Consensus pattern (18 bp):
AATATAATGAAATAAAAC
Found at i:1037794 original size:16 final size:16
Alignment explanation
Indices: 1037752--1037809 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
1037742 TTGAACTAGG
*
1037752 ATAATAAAATGACATTAA
1 ATAATAAAAGGACA--AA
* * *
1037770 AAAACAAAAGGACTAA
1 ATAATAAAAGGACAAA
*
1037786 ATTATAAAAGGACAAA
1 ATAATAAAAGGACAAA
1037802 ATAATAAA
1 ATAATAAA
1037810 GCATAAATAT
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
16 21 0.68
18 10 0.32
ACGTcount: A:0.66, C:0.07, G:0.09, T:0.19
Consensus pattern (16 bp):
ATAATAAAAGGACAAA
Found at i:1039525 original size:3 final size:3
Alignment explanation
Indices: 1039517--1039605 Score: 92
Period size: 3 Copynumber: 29.0 Consensus size: 3
1039507 AATATGTAAT
* *
1039517 TAA TAA TAA TAA TAA TAA TTAA TTAA TAA -ACA AAA TAA TAA -CA TAAA
1 TAA TAA TAA TAA TAA TAA -TAA -TAA TAA TA-A TAA TAA TAA TAA T-AA
* *
1039564 TAA TAA TAA TAA TAA CAT TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1039606 AAAAGATTAA
Statistics
Matches: 74, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
2 2 0.03
3 62 0.84
4 10 0.14
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1039574 original size:21 final size:21
Alignment explanation
Indices: 1039520--1039599 Score: 110
Period size: 21 Copynumber: 3.9 Consensus size: 21
1039510 ATGTAATTAA
*
1039520 TAATAATAATAATAATTA-AT
1 TAATAATAATAATAATAACAT
*
1039540 TAATAA-ACAAAATAATAACAT
1 TAATAATA-ATAATAATAACAT
*
1039561 AAATAATAATAATAATAACAT
1 TAATAATAATAATAATAACAT
1039582 TAATAATAATAATAATAA
1 TAATAATAATAATAATAA
1039600 TAATAAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.02
20 14 0.27
21 36 0.69
22 1 0.02
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (21 bp):
TAATAATAATAATAATAACAT
Found at i:1039887 original size:40 final size:40
Alignment explanation
Indices: 1039768--1040021 Score: 125
Period size: 40 Copynumber: 5.9 Consensus size: 40
1039758 TGTGGTTGTT
* *
1039768 GGGGACGACACGACTCATACGCGATGAAGAGTTCTGGTCG
1 GGGGATGACACGGCTCATACGCGATGAAGAGTTCTGGTCG
* * * * * **
1039808 TCTAAGGG-TGACACGGTTCCTACGTGATGAGGAAATCTGGTCG
1 ----GGGGATGACACGGCTCATACGCGATGAAGAGTTCTGGTCG
*
1039851 GGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGTCATCTTTAGG
1 GGGGATGACACGGCTCATACGCGATGAAGAGTTCTGG---TC-----G
* * * * * * *
1039899 AAGGGTGATAACTCGGTTCCTACGCGATGAGGACG-GCTGGTTATCT
1 --GGG-GATGACACGGCTCATACGCGATGAAGA-GTTCTGG---TCG
* * *
1039945 AGGGATGACACGGCTCCTACGCGATGAAGAGATCTGGTCG
1 GGGGATGACACGGCTCATACGCGATGAAGAGTTCTGGTCG
* *
1039985 GGGGATGACACGGCTCATACGTGATGAAGAATTCTGG
1 GGGGATGACACGGCTCATACGCGATGAAGAGTTCTGG
1040022 CAATCTCTAG
Statistics
Matches: 160, Mismatches: 36, Indels: 32
0.70 0.16 0.14
Matches are distributed among these distances:
39 3 0.02
40 61 0.38
42 1 0.01
43 56 0.35
44 5 0.03
48 1 0.01
50 3 0.02
51 29 0.18
52 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (40 bp):
GGGGATGACACGGCTCATACGCGATGAAGAGTTCTGGTCG
Found at i:1040033 original size:134 final size:132
Alignment explanation
Indices: 1039812--1040166 Score: 530
Period size: 134 Copynumber: 2.7 Consensus size: 132
1039802 TGGTCGTCTA
* * *
1039812 AGGGTGACACGGTTCCTACGTGATGAGGAAATCTGGTCGGGGGATGACACGGCTCATACGTGATG
1 AGGGTGACACGGCTCCTACGCGATGAGGAGATCTGGTCGGGGGATGACACGGCTCATACGTGATG
* * *
1039877 AAGAGTTCTGGTCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGCGATGAGGACGGCTGGTTA
66 AAGAGTTCTGG-CATCTTTAGGAAGGGCGATAACACGGTTCCTACACGATGAGGACGGCTGGTTA
*
1039942 TCT
130 TAT
*
1039945 AGGGATGACACGGCTCCTACGCGATGAAGAGATCTGGTCGGGGGATGACACGGCTCATACGTGAT
1 AGGG-TGACACGGCTCCTACGCGATGAGGAGATCTGGTCGGGGGATGACACGGCTCATACGTGAT
* * * *
1040010 GAAGAATTCTGGCAATCTCTAGGAAGGGCGATAACACGGTTCCTACATGATGAGGACGTCTGGTT
65 GAAGAGTTCTGGC-ATCTTTAGGAAGGGCGATAACACGGTTCCTACACGATGAGGACGGCTGGTT
1040075 ATAT
129 ATAT
* * *
1040079 AGGGGTGACACGGCTCCTACGCGATGAGGAGATCTGGTCAGGAGATGACATGGCTCATACGTGAT
1 A-GGGTGACACGGCTCCTACGCGATGAGGAGATCTGGTCGGGGGATGACACGGCTCATACGTGAT
1040144 GAAGAGTTCTGGCCATCTTTAGG
65 GAAGAGTTCTGG-CATCTTTAGG
1040167 GATAATGATT
Statistics
Matches: 200, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
133 5 0.03
134 191 0.95
135 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.24
Consensus pattern (132 bp):
AGGGTGACACGGCTCCTACGCGATGAGGAGATCTGGTCGGGGGATGACACGGCTCATACGTGATG
AAGAGTTCTGGCATCTTTAGGAAGGGCGATAACACGGTTCCTACACGATGAGGACGGCTGGTTAT
AT
Found at i:1040608 original size:92 final size:91
Alignment explanation
Indices: 1040375--1040602 Score: 282
Period size: 92 Copynumber: 2.5 Consensus size: 91
1040365 GTTAAGAGAC
* * *
1040375 ACAATCTCAAAG-A-TTTTTCAAAAGTAACAGACTCAAAGATTTTTCTCAAGAAAAACTGTCTCA
1 ACAAACTCAAAGAATTTTTTCAAAAGAAACA-ACTCAAAGATTTTTTTCAAG-AAAACTGTCTCA
* *
1040438 AGAGAGACAAAACTTTGTTTCAAAAGAA
64 AGAGAAACAAAACTTTGGTTCAAAAGAA
* * ** * * * *
1040466 GCAAACTCAAAGATTTTGGTTTCAAAAGAAATGACTCAAGGATTTTTTTCACG-AAATTGTCTTA
1 ACAAACTCAAAGAATTT--TTTCAAAAGAAACAACTCAAAGATTTTTTTCAAGAAAACTGTCTCA
1040530 AGAGAAACAAAACTTTGGTTCAAAAGAA
64 AGAGAAACAAAACTTTGGTTCAAAAGAA
1040558 ACAAACTCAAAGAATTTTTTCAAAAGAAACAACTCAAAGATTTTT
1 ACAAACTCAAAGAATTTTTTCAAAAGAAACAACTCAAAGATTTTT
1040603 ATTTCAAAAG
Statistics
Matches: 115, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
90 25 0.22
91 10 0.09
92 50 0.43
93 2 0.02
94 17 0.15
95 11 0.10
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (91 bp):
ACAAACTCAAAGAATTTTTTCAAAAGAAACAACTCAAAGATTTTTTTCAAGAAAACTGTCTCAAG
AGAAACAAAACTTTGGTTCAAAAGAA
Found at i:1040617 original size:29 final size:29
Alignment explanation
Indices: 1040543--1040707 Score: 163
Period size: 29 Copynumber: 5.6 Consensus size: 29
1040533 GAAACAAAAC
* *
1040543 TTTGGTTCAAAAGAAACAAACTCAAAGA-A
1 TTTGTTTCAAAAGAAAC-AACTCAAAGATT
1040572 TTT-TTTCAAAAGAAACAACTCAAAGATT
1 TTTGTTTCAAAAGAAACAACTCAAAGATT
* * *
1040600 TTTATTTCAAAAGAAACAACTCACAGACT
1 TTTGTTTCAAAAGAAACAACTCAAAGATT
*
1040629 TTTGTTTCAAGAGAAACAAACTCAAAGATAGGT
1 TTTGTTTCAAAAGAAAC-AACTCAAAGAT---T
** *
1040662 TTTGTTTCAAGGGAAACAATCTCAAAGATG
1 TTTGTTTCAAAAGAAACAA-CTCAAAGATT
* *
1040692 TTTGTTTTAAGAGAAA
1 TTTGTTTCAAAAGAAA
1040708 TTGTCTTAAA
Statistics
Matches: 117, Mismatches: 12, Indels: 13
0.82 0.08 0.09
Matches are distributed among these distances:
27 10 0.09
28 15 0.13
29 41 0.35
30 23 0.20
32 2 0.02
33 26 0.22
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (29 bp):
TTTGTTTCAAAAGAAACAACTCAAAGATT
Found at i:1040812 original size:66 final size:64
Alignment explanation
Indices: 1040703--1040854 Score: 155
Period size: 66 Copynumber: 2.3 Consensus size: 64
1040693 TTGTTTTAAG
* * * * * * *
1040703 AGAAATTGTCTTAAAAGAGACAAACCTTTGTTTTCATAAAAACAGACTTAAACATTTTTCTTCAA
1 AGAAACTGTCTCAAAAGAGACAAAACTTTATTTCCATAAAAACAGACTCAAACA-TTCT-TTCAA
1040768 A
64 A
* * *
1040769 AGGAAA-TGTCTCAAAAGAGACAAAATTTTATTTCCA-AAGAAACATACTCAAAGATTCTTTCAA
1 A-GAAACTGTCTCAAAAGAGACAAAACTTTATTTCCATAA-AAACAGACTCAAACATTCTTTCAA
1040832 A
64 A
*
1040833 AGAAACTTTCTCAAAAGAGACA
1 AGAAACTGTCTCAAAAGAGACA
1040855 TACTCAAAGA
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
63 4 0.05
64 22 0.30
65 5 0.07
66 38 0.52
67 4 0.05
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (64 bp):
AGAAACTGTCTCAAAAGAGACAAAACTTTATTTCCATAAAAACAGACTCAAACATTCTTTCAAA
Found at i:1040991 original size:30 final size:31
Alignment explanation
Indices: 1040937--1040995 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
1040927 GAGACAAAGT
*
1040937 TTTGTTTCAGAAGAAATAGACTCAAAGATCC
1 TTTGTTTCAAAAGAAATAGACTCAAAGATCC
1040968 TTTGTTTCAAAAGAAAT-GACTCAAAGAT
1 TTTGTTTCAAAAGAAATAGACTCAAAGAT
1040996 GATGTTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (31 bp):
TTTGTTTCAAAAGAAATAGACTCAAAGATCC
Found at i:1041073 original size:36 final size:36
Alignment explanation
Indices: 1041033--1041170 Score: 172
Period size: 36 Copynumber: 3.8 Consensus size: 36
1041023 ATAATTTGAA
1041033 AAATTGTCTCAAGTGAGACAACATTTGTTTTTAGAG
1 AAATTGTCTCAAGTGAGACAACATTTGTTTTTAGAG
* * * *
1041069 AAATTGTCTTAAATGAGACAAAAATTGTTTTTAGAG
1 AAATTGTCTCAAGTGAGACAACATTTGTTTTTAGAG
* *
1041105 AAATTGTCTCAAGCGAGACAACGTTTGTTTTT-GAG
1 AAATTGTCTCAAGTGAGACAACATTTGTTTTTAGAG
**
1041140 AAAACGATCTCAAGTGAGATCAAC-TTTGTTT
1 AAATTG-TCTCAAGTGAGA-CAACATTTGTTT
1041171 AATGTGAAAA
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
35 7 0.08
36 76 0.87
37 4 0.05
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (36 bp):
AAATTGTCTCAAGTGAGACAACATTTGTTTTTAGAG
Found at i:1041236 original size:104 final size:101
Alignment explanation
Indices: 1041109--1041448 Score: 373
Period size: 106 Copynumber: 3.3 Consensus size: 101
1041099 TTAGAGAAAT
* *
1041109 TGTCTCAAGCGAGAC-AACGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAA
1 TGTCTCAAACGAGACGAA-ATTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAA
1041173 TGTGAAAACAAATTCGAAATTTGTATTCTCAAAGGAAAAA
65 TGTG-AAACAAATTC-AAATTTGTA-TCTCAAAGGAAAAA
* * * * * *
1041213 TGTCTCAAACGAGACGGATTTTG-TTTTGAAAAAATAACAATCTCAAGTGAGATTAATTTTTGTT
1 TGTCTCAAACGAGACGAAATTTGTTTTTG--AGAA-AACGATCTCAAGTGAGATCAA-CTTTGTT
* *
1041277 TCAA-GTGAATCAAATTCAAAATTTGTATATCAAAGGAAAAAA
62 T-AATGTGAAACAAATTC-AAATTTGTATCTCAAAGG-AAAAA
* * * * * *
1041319 TGTCTCAAGCAAGACGAACTTTGTTTTAAGAGAAAGCGATCTCAAATGAGATCAACTTTGTTTAA
1 TGTCTCAAACGAGACGAAATTTGTTTT-TGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAA
1041384 TGTGAAACAAATTCAAATTTTGTATCTCAAAGGAAAAA
65 TGTGAAACAAATTCAAA-TTTGTATCTCAAAGGAAAAA
*
1041422 TGTCT-AAAGTGAGACGAAATTTGTTTT
1 TGTCTCAAA-CGAGACGAAATTTGTTTT
1041449 GAAAGAAATT
Statistics
Matches: 197, Mismatches: 27, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
102 2 0.01
103 35 0.18
104 51 0.26
105 29 0.15
106 64 0.32
107 13 0.07
108 3 0.02
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (101 bp):
TGTCTCAAACGAGACGAAATTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAAT
GTGAAACAAATTCAAATTTGTATCTCAAAGGAAAAA
Found at i:1041299 original size:106 final size:104
Alignment explanation
Indices: 1041146--1041457 Score: 380
Period size: 106 Copynumber: 3.0 Consensus size: 104
1041136 TGAGAAAACG
*
1041146 ATCTCAAGTGAGATCAACTTTGTTTAATGTGAAAACAAATTCGAAATTTGTATTCTCAAAGGAAA
1 ATCTCAAGTGAGATCAACTTTGTTTAATGTG-AAACAAATTCAAAATTTGTA-TCTCAAAGGAAA
* *
1041211 AATGTCTCAAACGAGACGGATTTTGTTTTGAAAAAATAACA
64 AATGTCTCAAACGAGACGAAATTTGTTTTGAAAAAATAACA
* * * *
1041252 ATCTCAAGTGAGATTAATTTTTGTTTCAA-GTGAATCAAATTCAAAATTTGTATATCAAAGGAAA
1 ATCTCAAGTGAGATCAA-CTTTGTTT-AATGTGAAACAAATTCAAAATTTGTATCTCAAAGG-AA
* * * * * *
1041316 AAATGTCTCAAGCAAGACGAACTTTGTTTT-AAGAGAA-AGCG
63 AAATGTCTCAAACGAGACGAAATTTGTTTTGAA-AAAATAACA
* *
1041357 ATCTCAAATGAGATCAACTTTGTTTAATGTGAAACAAATTCAAATTTTGTATCTCAAAGGAAAAA
1 ATCTCAAGTGAGATCAACTTTGTTTAATGTGAAACAAATTCAAAATTTGTATCTCAAAGGAAAAA
*
1041422 TGTCT-AAAGTGAGACGAAATTTGTTTTGAAAGAAAT
66 TGTCTCAAA-CGAGACGAAATTTGTTTTGAAA-AAAT
1041458 TGTCTCAAGC
Statistics
Matches: 174, Mismatches: 23, Indels: 19
0.81 0.11 0.09
Matches are distributed among these distances:
102 2 0.01
103 28 0.16
104 40 0.23
105 27 0.16
106 65 0.37
107 10 0.06
108 2 0.01
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (104 bp):
ATCTCAAGTGAGATCAACTTTGTTTAATGTGAAACAAATTCAAAATTTGTATCTCAAAGGAAAAA
TGTCTCAAACGAGACGAAATTTGTTTTGAAAAAATAACA
Found at i:1041472 original size:36 final size:35
Alignment explanation
Indices: 1041417--1041559 Score: 150
Period size: 36 Copynumber: 4.1 Consensus size: 35
1041407 ATCTCAAAGG
* * *
1041417 AAAAA-TGTCTAAAGTGAGACGAAATTTGTTTTGA
1 AAAAATTGTCTCAAGCGAGACAAAATTTGTTTTGA
*
1041451 AAGAAATTGTCTCAAGCGAGACAAAATTTGTTTTTA
1 AA-AAATTGTCTCAAGCGAGACAAAATTTGTTTTGA
* * *
1041487 GAAAACTGTCTCAAGCGAGTCAAAATTT-TCTTTGA
1 AAAAATTGTCTCAAGCGAGACAAAATTTGT-TTTGA
* *
1041522 GAAAAATTATCTCAAGCGACA-AAAATTTGTTTT-A
1 -AAAAATTGTCTCAAGCGAGACAAAATTTGTTTTGA
1041556 AAAA
1 AAAA
1041560 TCTCAAAATT
Statistics
Matches: 91, Mismatches: 13, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
33 4 0.04
34 4 0.04
35 41 0.45
36 42 0.46
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.31
Consensus pattern (35 bp):
AAAAATTGTCTCAAGCGAGACAAAATTTGTTTTGA
Done.