Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168490.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_88, 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: 101443
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Found at i:2677 original size:26 final size:25
Alignment explanation
Indices: 2648--2708 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
2638 ATTAATTAGA
*
2648 ATTAATATATTTTTATTG-AAATATAT
1 ATTAATATATATTTA-TGAAAATAT-T
*
2674 ATTATTATATATTTATGAAAATATT
1 ATTAATATATATTTATGAAAATATT
2699 ATCTAATATA
1 AT-TAATATA
2709 AACGATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (25 bp):
ATTAATATATATTTATGAAAATATT
Found at i:3513 original size:16 final size:17
Alignment explanation
Indices: 3492--3526 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3482 TGAAGGCATT
3492 TTTGCCA-AAAAAGGCC
1 TTTGCCAGAAAAAGGCC
*
3508 TTTGCCAGAAAAGGGCC
1 TTTGCCAGAAAAAGGCC
3525 TT
1 TT
3527 AAATAACCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (17 bp):
TTTGCCAGAAAAAGGCC
Found at i:7606 original size:113 final size:113
Alignment explanation
Indices: 7465--7698 Score: 407
Period size: 113 Copynumber: 2.1 Consensus size: 113
7455 AAAGACATTA
*
7465 TTGAAGGGGTTTTTGGCTAAAAACGCCTTCATTAATCCCCTTTAAATTTTGAAATAAGGTTATTT
1 TTGAAGGGGTTTTTGGCTAAAAACGCCTTCATTAATCCCCTTTAAATTTTGAAATAAGATTATTT
* *
7530 AAGGTATTTTTGAATAAAAAAATACCTTCAATAA-TTTTTTTTAAAATT
66 AAGGCATTTCTGAATAAAAAAATACCTTCAA-AATTTTTTTTTAAAATT
*
7578 TTGAAGGGGTTTTTGGCTAAAAACGCCTTCATTAATCCCCTTTAAATTTTGAAATGAGATTATTT
1 TTGAAGGGGTTTTTGGCTAAAAACGCCTTCATTAATCCCCTTTAAATTTTGAAATAAGATTATTT
7643 AAGGCATTTCTGAATAAAAAAATACCTTCAAAATTTTTTTTTAAAATT
66 AAGGCATTTCTGAATAAAAAAATACCTTCAAAATTTTTTTTTAAAATT
*
7691 TTTAAGGG
1 TTGAAGGG
7699 ATTATTGAAG
Statistics
Matches: 115, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
112 2 0.02
113 113 0.98
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (113 bp):
TTGAAGGGGTTTTTGGCTAAAAACGCCTTCATTAATCCCCTTTAAATTTTGAAATAAGATTATTT
AAGGCATTTCTGAATAAAAAAATACCTTCAAAATTTTTTTTTAAAATT
Found at i:7770 original size:60 final size:57
Alignment explanation
Indices: 7697--7843 Score: 163
Period size: 59 Copynumber: 2.5 Consensus size: 57
7687 AATTTTTAAG
*
7697 GGATTATTGAAGGTGATTCTAACT-AAAAACACTTTCAATAATC-CCTTGATAAAAATGGAA
1 GGATTATTGAAGGT-ATT-T-ACTAAAAAACACCTTCAATAATCTCC-TGATAAAAATGG-A
* * *
7757 GGATTATTTAAGGTATTTTCTGAAAAAATACCTTCAATAATCTCCTGATAAAAATGGA
1 GGATTATTGAAGGTATTTACT-AAAAAACACCTTCAATAATCTCCTGATAAAAATGGA
*
7815 GAGATTATTGAAGGTATTTTCTGAAAAAA
1 G-GATTATTGAAGGTATTTACT-AAAAAA
7844 AAAAAAAAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
57 2 0.03
58 3 0.04
59 58 0.74
60 15 0.19
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.33
Consensus pattern (57 bp):
GGATTATTGAAGGTATTTACTAAAAAACACCTTCAATAATCTCCTGATAAAAATGGA
Found at i:7796 original size:59 final size:59
Alignment explanation
Indices: 7721--7843 Score: 187
Period size: 59 Copynumber: 2.1 Consensus size: 59
7711 GATTCTAACT
* *
7721 AAAAACACTTTCAATAATC-CCTTGATAAAAATGGA-AGGATTATTTAAGGTATTTTCTGA
1 AAAAACACCTTCAATAATCTCC-TGATAAAAATGGAGA-GATTATTGAAGGTATTTTCTGA
*
7780 AAAAATACCTTCAATAATCTCCTGATAAAAATGGAGAGATTATTGAAGGTATTTTCTGA
1 AAAAACACCTTCAATAATCTCCTGATAAAAATGGAGAGATTATTGAAGGTATTTTCTGA
7839 AAAAA
1 AAAAA
7844 AAAAAAAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
59 56 0.95
60 3 0.05
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (59 bp):
AAAAACACCTTCAATAATCTCCTGATAAAAATGGAGAGATTATTGAAGGTATTTTCTGA
Found at i:8376 original size:62 final size:62
Alignment explanation
Indices: 8052--8999 Score: 292
Period size: 62 Copynumber: 15.1 Consensus size: 62
8042 GCCTTCAATC
* * *
8052 TTTAAAACATTGAAGGGGATTATTGAAGGTGTTTTCGT-C--AAAACTGCCTTCAATAATCTCTT
1 TTTAAAA-ATTGAAGGGGATTATTGAAGGTATTTT--TACAAAAAAATACCTTCAATAATCT-TT
8114 T
62 T
* * * * * *
8115 ATTAAAATTTAAAAGGGG-TTATTGAAGGTATTTTTGGCAAAAAAAATACCTTGAATAATCCTTT
1 TTTAAAAATT-GAAGGGGATTATTGAAGGTATTTTT-AC-AAAAAAATACCTTCAATAATCTTTT
** * ** * **
8179 GATAAAAA-TGGAGAAGATTATTGAAGGTATTTTCTATAAAAAAAATACACCTTTGATAAT-TTC
1 TTTAAAAATTGAAGGGGATTATTGAAGGTATTTT-TA-CAAAAAAAT--ACCTTCAATAATCTT-
8242 TT
61 TT
* *** * * ** * * **
8244 TTAAAAAATTGAAGCAAATTATTAAAGATATTTTTAGTAAAAAACACATTCAATAATCTCCT
1 TTTAAAAATTGAAGGGGATTATTGAAGGTATTTTTACAAAAAAATACCTTCAATAATCTTTT
* * * *
8306 TGTCAAAATTGGAGGGGATTATTGAAGGTATGTTTTACAAAAAAATGCCTTCAATAAT-TTTT
1 TTTAAAAATTGAAGGGGATTATTGAAGGTAT-TTTTACAAAAAAATACCTTCAATAATCTTTT
** ** ** ***
8368 TTTAAAAATTTGAAAAGGATTATTGAAGGCGTTTTTAGTAAAAAATACCTTCAATAATCGCCT
1 TTTAAAAA-TTGAAGGGGATTATTGAAGGTATTTTTACAAAAAAATACCTTCAATAATCTTTT
* * * * * * ** * * * *
8431 TGTCAAAATTTAAAGAGATTAATGAAGGTATTTTTTTTATAGAAAACACCTTGAATAATCTCTTG
1 TTTAAAAATTGAAGGGGATTATTGAAGGTA-TTTTTACA-AAAAAATACCTTCAATAATCT-TTT
* * * ** ** * *
8496 ATT-AAAA-TGAAAGAGATTATTGAAGGCGTTTTCT-GTAAAAATTATCTGT-AATAAT-TTTT
1 TTTAAAAATTGAAGGGGATTATTGAAGGTATTTT-TACAAAAAAATACCT-TCAATAATCTTTT
** *** *** * **
8555 TAAAAAAAATT-AGAGGGGATTATTGAATACATTTTTAGTCAAAAATGCCTTCAATAATCTCCT
1 T-TTAAAAATTGA-AGGGGATTATTGAAGGTATTTTTACAAAAAAATACCTTCAATAATCTTTT
** * * ** ** * *** *
8618 CGTCAAAATTTAAGAAGATTATTGAAGGCGTTTTTGGC-AAAAAACGGCTTAAATAATGC-TTT
1 TTTAAAAATTGAAGGGGATTATTGAAGGTATTTTT-ACAAAAAAATACCTTCAATAAT-CTTTT
** * ** *
8680 GATAAAAATGTG-A-GAGATTATTGAAGGTATTTTCTGTAAAAAAATACATTCAATAAT-TTTT
1 TTTAAAAAT-TGAAGGGGATTATTGAAGGTATTTT-TACAAAAAAATACCTTCAATAATCTTTT
* * * *
8741 TTAAAAAAATTAGAA-TGGATTATTGAAGGTATTTTTTGTAAAAAAAAATACTTTCAATAAT-TT
1 TT-TAAAAATT-GAAGGGGATTATTGAAGGTA--TTTT-TACAAAAAAATACCTTCAATAATCTT
8804 CTT
61 -TT
* * * * * *** ** *
8807 TTAAAAAATTGGAGGAGATTATTAAAGGTGTTTTTAGTCAAAAACGCCTTCAAT-ATGCTCTTC
1 TTTAAAAATTGAAGGGGATTATTGAAGGTATTTTTACAAAAAAATACCTTCAATAAT-CT-TTT
* * * * **
8870 GTT-AAAATTTAA-GAGAGTTATTGAAGGTATTTTTAGC-AAAAAATACCTTGAATAATCTCCT
1 TTTAAAAATTGAAGGGGA-TTATTGAAGGTATTTTTA-CAAAAAAATACCTTCAATAATCTTTT
* * * * * * *
8931 GTTAAAAATGGAA-GGGATTATTGTAGGTGTTTTCTATACAAAAATGCCTTCAATAAT-TTTT
1 TTTAAAAATTGAAGGGGATTATTGAAGGTATTTT-TACAAAAAAATACCTTCAATAATCTTTT
*
8992 TTAAAAAA
1 TTTAAAAA
9000 ACAAAAAGGG
Statistics
Matches: 645, Mismatches: 188, Indels: 106
0.69 0.20 0.11
Matches are distributed among these distances:
59 2 0.00
60 2 0.00
61 73 0.11
62 286 0.44
63 136 0.21
64 40 0.06
65 82 0.13
66 24 0.04
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (62 bp):
TTTAAAAATTGAAGGGGATTATTGAAGGTATTTTTACAAAAAAATACCTTCAATAATCTTTT
Found at i:8489 original size:64 final size:64
Alignment explanation
Indices: 8399--8521 Score: 151
Period size: 64 Copynumber: 1.9 Consensus size: 64
8389 ATTGAAGGCG
* *
8399 TTTTTAGTAAAAAATACCTTCAATAATCGCCTTG-TCAAAATTTAAAGAGATTAATGAAGGTATT
1 TTTTTAGTAAAAAACACCTTCAATAATC-CCTTGATCAAAA-TGAAAGAGATTAATGAAGGTATT
8463 T
64 T
* * * * *
8464 TTTTTA-TAGAAAACACCTTGAATAATCTCTTGATTAAAATGAAAGAGATTATTGAAGG
1 TTTTTAGTAAAAAACACCTTCAATAATCCCTTGATCAAAATGAAAGAGATTAATGAAGG
8522 CGTTTTCTGT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
63 21 0.42
64 23 0.46
65 6 0.12
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.36
Consensus pattern (64 bp):
TTTTTAGTAAAAAACACCTTCAATAATCCCTTGATCAAAATGAAAGAGATTAATGAAGGTATTT
Found at i:8577 original size:187 final size:186
Alignment explanation
Indices: 8322--8785 Score: 483
Period size: 187 Copynumber: 2.5 Consensus size: 186
8312 AATTGGAGGG
* ** * * ** * *
8322 GATTATTGAAGGTATGTTT-TACAAAAAAATGCCTTCAATAATTTTTT-TTAAAAATTTGAAAAG
1 GATTATTGAAGGCAT-TTTCTGTAAAAAAATACATTCAATAATTTTTTAAAAAAAATTAG-AAGG
* *
8385 GATTATTGAAGGCGTTTTTAGTAAAAAATACCTTCAATAATCGCCTTGTCAAAATTTAA-AGAGA
64 GATTATTGAAGGCATTTTTAGTAAAAAATACCTTCAATAATCGCCTCGTCAAAATTTAAGA-AGA
* *** * *
8449 TTAATGAAGGTATTTTTTTTATAGAAAACACCTTGAATAAT-CTCTTGATTAAAATGAAAGA
128 TTAATGAAGGCATTTTTGGCA-A-AAAACACCTTAAATAATGCT-TTGATAAAAATGAAAGA
* * *
8510 GATTATTGAAGGCGTTTTCTGT-AAAAATTATC-TGT-AATAATTTTTTAAAAAAAATTAGAGGG
1 GATTATTGAAGGCATTTTCTGTAAAAAAATA-CAT-TCAATAATTTTTTAAAAAAAATTAGAAGG
** * * *
8572 GATTATTGAATACATTTTTAGTCAAAAATGCCTTCAATAATCTCCTCGTCAAAATTTAAGAAGAT
64 GATTATTGAAGGCATTTTTAGTAAAAAATACCTTCAATAATCGCCTCGTCAAAATTTAAGAAGAT
* * ** **
8637 TATTGAAGGCGTTTTTGGCAAAAAACGGCTTAAATAATGCTTTGATAAAAATGTGAGA
129 TAATGAAGGCATTTTTGGCAAAAAACACCTTAAATAATGCTTTGATAAAAATGAAAGA
* * *
8695 GATTATTGAAGGTATTTTCTGTAAAAAAATACATTCAATAATTTTTTTAAAAAAATTAGAATGGA
1 GATTATTGAAGGCATTTTCTGTAAAAAAATACATTCAATAATTTTTTAAAAAAAATTAGAAGGGA
* *
8760 TTATTGAAGGTATTTTTTGTAAAAAA
66 TTATTGAAGGCATTTTTAGTAAAAAA
8786 AAATACTTTC
Statistics
Matches: 226, Mismatches: 41, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
185 50 0.22
186 58 0.26
187 93 0.41
188 25 0.11
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (186 bp):
GATTATTGAAGGCATTTTCTGTAAAAAAATACATTCAATAATTTTTTAAAAAAAATTAGAAGGGA
TTATTGAAGGCATTTTTAGTAAAAAATACCTTCAATAATCGCCTCGTCAAAATTTAAGAAGATTA
ATGAAGGCATTTTTGGCAAAAAACACCTTAAATAATGCTTTGATAAAAATGAAAGA
Found at i:9000 original size:62 final size:61
Alignment explanation
Indices: 7849--9176 Score: 270
Period size: 62 Copynumber: 21.3 Consensus size: 61
7839 AAAAAAAAAA
* * * *
7849 AAAAACACATTCAATAATTTTTTAAAAAAAAATTGAAGAGGATTATTGAAGGTGTTTTTGATA-
1 AAAAATACCTTCAATAATTTTTT-TAAAAAAATAGAAG-GGATTATTGAAGGTGTTTTT-ATAC
* ** * ** * * * * *
7912 GAAAATTGCTTGAATAA-TTCCTTAATAAAAATTTG-AGAGATTATTTAAGGTGTTTTCTGTAA
1 AAAAATACCTTCAATAATTTTTTTAA-AAAAA-TAGAAGGGATTATTGAAGGTGTTTT-TATAC
* * * * *
7974 AAAAATACTTTCAATACTTTTTTTTAAAAAAAT-GAAAGAGATTATTGAAGGTATTTTTTGTA-
1 AAAAATACCTTCAATA-ATTTTTTTAAAAAAATAG-AAGGGATTATTGAAGGT-GTTTTTATAC
** * * * **
8036 AAAAAGGCCTTC---AA--TCTTT-AAAACATTGAAGGGGATTATTGAAGGTGTTTTCGT-C
1 AAAAATACCTTCAATAATTTTTTTAAAAAAATAGAA-GGGATTATTGAAGGTGTTTTTATAC
* * ** * * *
8091 AAAACTGCCTTCAATAATCTCTTTATT-AAAATTTAAAAGGGGTTATTGAAGGTATTTTTGGCA-
1 AAAAATACCTTCAATAAT-T-TTT-TTAAAAAAATAGAAGGGATTATTGAAGGTGTTTTT---AT
*
8154 AA
60 AC
* ** * * * *
8156 AAAAATACCTTGAATAATCCTTTGATAAAAATGGAGAA--GATTATTGAAGGTATTTTCTATAAA
1 AAAAATACCTTCAATAATTTTTTTAAAAAAAT--AGAAGGGATTATTGAAGGTGTTTT-TAT-AC
** * ** * * *
8219 AAAAATACACCTTTGATAATTTCTTTT-AAAAAATTGAAGCAAATTATTAAAGATATTTTTAGTA
1 AAAAAT--ACCTTCAATAATTT-TTTTAAAAAAATAGAAG-GGATTATTGAAGGTGTTTTTA-TA
8283 -
61 C
* * * * * * * * * * *
8283 AAAAACACATTCAATAATCTCCTTGT-CAAAATTGGAGGGGATTATTGAAGGTATGTTTTACAA
1 AAAAATACCTTCAATAAT-T-TTTTTAAAAAAATAGAAGGGATTATTGAAGGTGT-TTTTATAC
* * * * * *
8346 AAAAATGCCTTCAATAATTTTTTTTAAAAATTTGAAAAGGATTATTGAAGGCGTTTTTAGTA-
1 AAAAATACCTTCAATAATTTTTTTAAAAAAATAG-AAGGGATTATTGAAGGTGTTTTTA-TAC
** * * ** * * * * *
8408 AAAAATACCTTCAATAATCGCCTTGTCAAAATTTA-AAGAGATTAATGAAGGTATTTTTTTTAT
1 AAAAATACCTTCAATAAT--TTTTTTAAAAAAATAGAAGGGATTATTGAAGGT-GTTTTTATAC
* * * * * ** * * *
8471 AGAAAACACCTTGAATAATCTCTTGATTAAAAT-GAAAGAGATTATTGAAGGCGTTTTCTGTA-
1 A-AAAATACCTTCAATAATTTTTTTAAAAAAATAG-AAGGGATTATTGAAGGTGTTTT-TATAC
* * * * ****
8533 AAAATTATCTGT-AATAATTTTTTAAAAAAAATTAGAGGGGATTATTGAATACATTTTTAGT-C
1 AAAAATACCT-TCAATAATTTTTTTAAAAAAA-TAGAAGGGATTATTGAAGGTGTTTTTA-TAC
* * ** * ** * **
8595 AAAAATGCCTTCAATAATCTCCTCGTCAAAATTTAAGAA--GATTATTGAAGGCGTTTTT-GGC
1 AAAAATACCTTCAATAAT-T-TTTTTAAAAAAAT-AGAAGGGATTATTGAAGGTGTTTTTATAC
* ** * * * * * * *
8656 AAAAA-ACGGCTTAAATAATGCTTTGATAAAAAT-GTGAGAGATTATTGAAGGTATTTTCTGTAA
1 AAAAATAC--CTTCAATAATTTTTTTAAAAAAATAG-AAGGGATTATTGAAGGTGTTTT-TATAC
* * * * *
8719 AAAAATACATTCAATAATTTTTTTAAAAAAATTAGAATGGATTATTGAAGGTATTTTTTGTAAAA
1 AAAAATACCTTCAATAATTTTTTTAAAAAAA-TAGAAGGGATTATTGAAGG--TGTTTT-TATAC
* * * *
8784 AAAAATACTTTCAATAATTTCTTTT-AAAAAATTGGAGGAGATTATTAAAGGTGTTTTTAGT-C
1 AAAAATACCTTCAATAATTT-TTTTAAAAAAATAGAAGG-GATTATTGAAGGTGTTTTTA-TAC
** * * **** ** * * *
8846 AAAAACGCCTTCAAT-ATGCTCTTCGTTAAAATTTAAGAGAGTTATTGAAGGTATTTTTA-GC
1 AAAAATACCTTCAATAAT-TTTTTTAAAAAAATAGAAGGGA-TTATTGAAGGTGTTTTTATAC
* * * * *
8907 AAAAAATACCTTGAATAATCTCCTGTT--AAAAATGGAAGGGATTATTGTAGGTGTTTTCTATAC
1 -AAAAATACCTTCAATAAT-T-TTTTTAAAAAAATAGAAGGGATTATTGAAGGTGTTTT-TATAC
* * * **
8970 AAAAATGCCTTCAATAATTTTTTTAAAAAAACAAAAAGGGATTATTGAAGACGTTTTTAGT-C
1 AAAAATACCTTCAATAATTTTTTTAAAAAAA-TAGAAGGGATTATTGAAGGTGTTTTTA-TAC
* * ** * * *
9032 -AAAATACCTTCAATAATTTTCTCGTCAAAATTTA-AAGAGATTATTGAAGGCGTTTTCTACAAA
1 AAAAATACCTTCAATAATTTT-T-TTAAAAAAATAGAAGGGATTATTGAAGGTGTTTT-T---AT
*
9095 AA
60 AC
* * * * * **
9097 AAAAATGCTTTCAATAATTTCTTTTAAAAAATTAGAAAGGATTATTGAATGCATTTTTAGT-C
1 AAAAATACCTTCAATAATTT-TTTTAAAAAAATAGAAGGGATTATTGAAGGTGTTTTTA-TAC
* *
9159 AAAAACACCTTAAATAAT
1 AAAAATACCTTCAATAAT
9177 CTCCTCGTCA
Statistics
Matches: 915, Mismatches: 249, Indels: 203
0.67 0.18 0.15
Matches are distributed among these distances:
55 24 0.03
56 19 0.02
58 3 0.00
59 2 0.00
60 10 0.01
61 131 0.14
62 311 0.34
63 208 0.23
64 56 0.06
65 91 0.10
66 59 0.06
67 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.36
Consensus pattern (61 bp):
AAAAATACCTTCAATAATTTTTTTAAAAAAATAGAAGGGATTATTGAAGGTGTTTTTATAC
Found at i:9215 original size:62 final size:62
Alignment explanation
Indices: 8274--9215 Score: 311
Period size: 62 Copynumber: 15.1 Consensus size: 62
8264 ATTAAAGATA
* * * * * ** * * *
8274 TTTTTAGTAAAAAACACATTCAATAATCTCCTTGTCAAAATTGGAGGGGATTATTGAAGGTA
1 TTTTTAGTCAAAAATACCTTCAATAATCTCCTCGTAAAAATTTAAAGAGATTATTGAAGGTG
*** * ** ** *
8336 TGTTTTACAAAAAAATGCCTTCAATAAT-TTTTTTTAAAAATTTGAAA-AGGATTATTGAAGGCG
1 T-TTTTAGTCAAAAATACCTTCAATAATCTCCTCGTAAAAATTT-AAAGA-GATTATTGAAGGTG
* * * * * *
8399 TTTTTAGTAAAAAATACCTTCAATAATCGCCTTGTCAAAATTTAAAGAGATTAATGAAGGTA
1 TTTTTAGTCAAAAATACCTTCAATAATCTCCTCGTAAAAATTTAAAGAGATTATTGAAGGTG
** * * * * * * *
8461 TTTTTTTTATAGAAAACACCTTGAATAATCT-CTTGATTAAAA-TGAAAGAGATTATTGAAGGCG
1 TTTTTAGT-CA-AAAATACCTTCAATAATCTCCTCG-TAAAAATTTAAAGAGATTATTGAAGGTG
* ** *** * * * ***
8524 TTTTCT-GT-AAAAATTATCTGT-AATAAT-TTTTTAAAAAAAATTAGAGGGGATTATTGAATAC
1 TTTT-TAGTCAAAAA-TACCT-TCAATAATCTCCTCGTAAAAATTTA-AAGAGATTATTGAAGGT
*
8585 A
62 G
* * *
8586 TTTTTAGTCAAAAATGCCTTCAATAATCTCCTCGTCAAAATTT-AAGAAGATTATTGAAGGCG
1 TTTTTAGTCAAAAATACCTTCAATAATCTCCTCGTAAAAATTTAAAG-AGATTATTGAAGGTG
* * * * *
8648 TTTTT-GGCAAAAA-ACGGCTTAAATAATGCT--TTGATAAAAATGT-GAGAGATTATTGAAGGT
1 TTTTTAGTCAAAAATAC--CTTCAATAAT-CTCCTCG-TAAAAATTTAAAGAGATTATTGAAGGT
*
8708 A
62 G
* * * ** *
8709 TTTTCT-GTAAAAAAATACATTCAATAAT-T-TTTTTAAAAAAATTAGAATG-GATTATTGAAGG
1 TTTT-TAGT-CAAAAATACCTTCAATAATCTCCTCGT-AAAAATTTA-AA-GAGATTATTGAAGG
*
8770 TA
61 TG
* * * * ** ** * *
8772 TTTTTTGTAAAAAAAAATACTTTCAATAAT-TTCTTTTAAAAAATTGGAGGAGATTATTAAAGGT
1 TTTTTAGT---CAAAAATACCTTCAATAATCTCCTCGT-AAAAATTTAAAGAGATTATTGAAGGT
8836 G
62 G
** * * *
8837 TTTTTAGTCAAAAACGCCTTCAAT-ATGCTCTTCGTTAAAATTT-AAGAGAGTTATTGAAGGTA
1 TTTTTAGTCAAAAATACCTTCAATAAT-CTCCTCGTAAAAATTTAAAGAGA-TTATTGAAGGTG
* ** * *
8899 TTTTTAG-CAAAAAATACCTTGAATAATCTCCT-GTTAAAAA-TGGAAGGGATTATTGTAGGTG
1 TTTTTAGTC-AAAAATACCTTCAATAATCTCCTCG-TAAAAATTTAAAGAGATTATTGAAGGTG
* * ** *** *** * **
8960 TTTTCTA-TACAAAAATGCCTTCAATAATTTTTTTAAAAAAACAAAAAGGGATTATTGAAGACG
1 TTTT-TAGT-CAAAAATACCTTCAATAATCTCCTCGTAAAAATTTAAAGAGATTATTGAAGGTG
* * * *
9023 TTTTTAGTC-AAAATACCTTCAATAATTTTCTCGTCAAAATTTAAAGAGATTATTGAAGGCG
1 TTTTTAGTCAAAAATACCTTCAATAATCTCCTCGTAAAAATTTAAAGAGATTATTGAAGGTG
*** * * * ** * *
9084 TTTTCTACAAAAAAAAAATGCTTTCAATAAT-TTCTTTTAAAAAATTAGAA-AGGATTATTGAAT
1 TTTT-T---AGTCAAAAATACCTTCAATAATCTCCTCGTAAAAATTTA-AAGA-GATTATTGAAG
**
9147 GCA
60 GTG
* * * * *
9150 TTTTTAGTCAAAAACACCTTAAATAATCTCCTCGTCAAAATTTAAAGAGATTATTAAAGGTA
1 TTTTTAGTCAAAAATACCTTCAATAATCTCCTCGTAAAAATTTAAAGAGATTATTGAAGGTG
9212 TTTT
1 TTTT
9216 CTGTAAAAAA
Statistics
Matches: 660, Mismatches: 162, Indels: 116
0.70 0.17 0.12
Matches are distributed among these distances:
60 12 0.02
61 121 0.18
62 250 0.38
63 152 0.23
64 26 0.04
65 55 0.08
66 44 0.07
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (62 bp):
TTTTTAGTCAAAAATACCTTCAATAATCTCCTCGTAAAAATTTAAAGAGATTATTGAAGGTG
Found at i:9290 original size:136 final size:128
Alignment explanation
Indices: 8979--9353 Score: 396
Period size: 136 Copynumber: 2.9 Consensus size: 128
8969 CAAAAATGCC
** *
8979 TTCAATAATTT-TTTTAAAAAAACAAAAAGGGATTATTGAA-GACGTTTTTAGTCAAAATACCTT
1 TTCAATAATTTCTTTT-AAAAAATTAGAAGGGATTATTGAATG-CGTTTTTAGTCAAAATACCTT
* * * * * ** *
9042 CAATAATTTTCTCGTCAAAATTTAAAGAGATTATTGAAGGCGTTTTC-TACAAAAAAAAAATGCT
64 AAATAATCTCCTCGTCAAAATTTAAAGAGATTATTGAAGGCATTTTCTTAAAAAAAAAAAACACA
* * *
9106 TTCAATAATTTCTTTTAAAAAATTAGAAAGGATTATTGAATGCATTTTTAGTCAAAAACACCTTA
1 TTCAATAATTTCTTTTAAAAAATTAGAAGGGATTATTGAATGCGTTTTTAGTC-AAAATACCTTA
* *
9171 AATAATCTCCTCGTCAAAATTTAAAGAGATTATTAAAGGTATTTTCTGTAAAAAAAAAAAAAAAA
65 AATAATCTCCTCGTCAAAATTTAAAGAGATTATTGAAGGCATTTTCT-T------AAAAAAAAAA
9236 AACACA
123 AACACA
* * * * * *
9242 TTCAATAATTTCTTTTAAAAAATTGGAGGGGATTATTCAATGCGTTTTTAGTTTAAAATGCCTTT
1 TTCAATAATTTCTTTTAAAAAATTAGAAGGGATTATTGAATGCGTTTTTAG-TCAAAATACCTTA
* * * *
9307 AATAATCTCCTTGTCAAGATTTAAGGGGATTATTGAAGGCATTTTCT
65 AATAATCTCCTCGTCAAAATTTAAAGAGATTATTGAAGGCATTTTCT
9354 ACCTGAAACA
Statistics
Matches: 205, Mismatches: 31, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
127 41 0.20
128 55 0.27
130 1 0.00
136 107 0.52
137 1 0.00
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (128 bp):
TTCAATAATTTCTTTTAAAAAATTAGAAGGGATTATTGAATGCGTTTTTAGTCAAAATACCTTAA
ATAATCTCCTCGTCAAAATTTAAAGAGATTATTGAAGGCATTTTCTTAAAAAAAAAAAACACA
Found at i:15784 original size:161 final size:161
Alignment explanation
Indices: 15577--16642 Score: 965
Period size: 161 Copynumber: 6.7 Consensus size: 161
15567 TCAGTTTACA
* * * * * * * *
15577 ACTTTTTGTGATGTTACAAGGTAAAAATTCAAATTTATAGTTATTGTTCTATTTTAATAGTTTTG
1 ACTTTTTGTGCTGTTAAAAGGCAAAAATACAAATTTGTTGTTATTGTTCTATTTTAACAGTTTGG
* * * * *
15642 ATAGTTTCAATACATGATATTAAACTTATCCAAATTATTGAATTTAGTTTCTAC-GATTGATATG
66 ATAGCTTCAATACATGATATTAAACTTGTCCGAATAATTGAACTTAGTTTCTACAG-TTGATATG
* *
15706 TATAAAAAAGTTATTGTTTACATCTATTTAGG
130 TGTAAAAAAGTTATTGTTTACATCTATTTAAG
* * *
15738 ACTTTTTGTGCTGTTAATAGGTAAAAATACTAATTTGTTGTTATTGTTCTA-TTT---AGTTTGG
1 ACTTTTTGTGCTGTTAAAAGGCAAAAATACAAATTTGTTGTTATTGTTCTATTTTAACAGTTTGG
* * * * * * *
15799 ATAGCTCCAATACATGATATTAAACTTGTCCAAATTATTGAACTTGGTTTCCATAGTTTATATGT
66 ATAGCTTCAATACATGATATTAAACTTGTCCGAATAATTGAACTTAGTTTCTACAGTTGATATGT
* * * **
15864 GTGAAAAAGTTATCGTTTACATTTGCTTAAG
131 GTAAAAAAGTTATTGTTTACATCTATTTAAG
* * * * ** *
15895 ACTTTTTGTGATGTTAAGAGGCAAACATGCAAATTTGTTGTTATTGTTCTATTTTAGTAGTTTGC
1 ACTTTTTGTGCTGTTAAAAGGCAAAAATACAAATTTGTTGTTATTGTTCTATTTTAACAGTTTGG
** * * *
15960 ATAAATTCAATACATGATATTAAACTTGTCGGAATAATTGAACTTAGTTTCCACAGTTAATATGT
66 ATAGCTTCAATACATGATATTAAACTTGTCCGAATAATTGAACTTAGTTTCTACAGTTGATATGT
* * ** * * *
16025 ATGAAAAAA-CTAACGTTTACGTTTATTTAAC
131 GT-AAAAAAGTTATTGTTTACATCTATTTAAG
** ** * * * * * *
16056 ACTTTTCATGCCATTAGAAGGC-AAAATGCAAAATTGATATTATTGTTCTATTTTAACAGTTTAG
1 ACTTTTTGTGCTGTTAAAAGGCAAAAATACAAATTTGTTGTTATTGTTCTATTTTAACAGTTTGG
* ** * * *
16120 ATGGCTTCAATACATGATATTAAACTTGTTTGCATGATTGAACTTGGTTTCTACAGTTGATATGT
66 ATAGCTTCAATACATGATATTAAACTTGTCCGAATAATTGAACTTAGTTTCTACAGTTGATATGT
* **
16185 GTAAAAAAGTTATCT-CTTACATCTATTTGGG
131 GTAAAAAAGTTAT-TGTTTACATCTATTTAAG
** * * *
16216 ACTATTTT-TG-TCGTTAAAAGGCAAAAATACAAATTTACTATTATTATTCTATTTTAACAATTT
1 ACT-TTTTGTGCT-GTTAAAAGGCAAAAATACAAATTTGTTGTTATTGTTCTATTTTAACAGTTT
* * * **
16279 GGATGGCTTCAATACATGGTATTAAACTTTTTTGAATAATTGAACTTAGTTT-TAACAGTTGATA
64 GGATAGCTTCAATACATGATATTAAACTTGTCCGAATAATTGAACTTAGTTTCT-ACAGTTGATA
* * * * *
16343 TATGTGAAAAAA-TTGTTGTTTACCTTTGTTT-AG
128 TGTGT-AAAAAAGTTATTGTTTACATCTATTTAAG
* * * * * * * *
16376 AATTTTTCTGGTCATTAAAAGGCAAAAATATAAA-TTATTGCTATTGTTCTGTTTTAACAGTTTG
1 ACTTTTTGTGCT-GTTAAAAGGCAAAAATACAAATTTGTTGTTATTGTTCTATTTTAACAGTTTG
* * ** *
16440 GATAGCTTCAATATATGATATTAAACTTTTTTGAATAATTGAACTTGGTTT-TCACAGTTGATAT
65 GATAGCTTCAATACATGATATTAAACTTGTCCGAATAATTGAACTTAGTTTCT-ACAGTTGATAT
* * * * * *
16504 ATGTGACAAAGTTATTGTTTACCTCTGTTTATG
129 GTGTAAAAAAGTTATTGTTTACATCTATTTAAG
* * * * *
16537 ACTTTTTTTGCTGTTAAAAGGCAAAAATACAAAGTTGTTGTTATTGTTCTGTTTTAACAATTTAG
1 ACTTTTTGTGCTGTTAAAAGGCAAAAATACAAATTTGTTGTTATTGTTCTATTTTAACAGTTTGG
* *
16602 ATAGCTTCAATACATGATATTAAACTTGTCCAAATGATTGA
66 ATAGCTTCAATACATGATATTAAACTTGTCCGAATAATTGA
16643 TATGTGTGAA
Statistics
Matches: 747, Mismatches: 139, Indels: 38
0.81 0.15 0.04
Matches are distributed among these distances:
157 130 0.17
158 4 0.01
159 14 0.02
160 248 0.33
161 340 0.46
162 11 0.01
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (161 bp):
ACTTTTTGTGCTGTTAAAAGGCAAAAATACAAATTTGTTGTTATTGTTCTATTTTAACAGTTTGG
ATAGCTTCAATACATGATATTAAACTTGTCCGAATAATTGAACTTAGTTTCTACAGTTGATATGT
GTAAAAAAGTTATTGTTTACATCTATTTAAG
Found at i:16240 original size:321 final size:313
Alignment explanation
Indices: 15589--16642 Score: 978
Period size: 321 Copynumber: 3.3 Consensus size: 313
15579 TTTTTGTGAT
* * * * * * *
15589 GTTACAAGGTAAAAATTCAAATTTATAGTTATTGTTCTATTTTAATAGTTTTGATAGTTTCAATA
1 GTTAAAAGGCAAAAATACAAATTTATTGTTATTGTTCTATTTTAACA-ATTTGATAGCTTCAATA
* * * * *
15654 CATGATATTAAACTTATCCAAATTATTGAATTTAGTTTCTAC-GATTGATATGTAT-AAAAAAGT
65 CATGATATTAAACTTGTCCGAATAATTGAACTTAGTTTCAACAG-TTGATATGTATGAAAAAA-T
* * * ** * * * *
15717 TATTGTTTACATCTATTTAGGACTTTTTGTGCTGTTAATAGGTAAAAATACTAATTTGTTGTTAT
128 TATTGTTTACATTTATTTA-AAC-TTTTCTGCCATTAA-AGG-CAAAAT-CAAAATTGAT-TTAT
* *** *
15782 TGTTCTA-TTT---AGTTTGGATAGCTCCAATACATGATATTAAACTTGTCCAAATTATTGAACT
187 TGTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTTTGAATAATTGAACT
* * * * *
15843 TGGTTTCCATAGTTTATATGTGTGAAAAAGTTATCGTTTACATTTGCTTAAGACTTTTTGTGAT-
252 TGGTTTCTACAGTTGATATGTGTGAAAAAGTTATC-TTTACATCTGTTTAAGACTTTTT-TG-TC
* * * * ** * **
15907 GTTAAGAGGCAAACATGCAAATTTGTTGTTATTGTTCTATTTTAGTAGTTTGCATAAATTCAATA
1 GTTAAAAGGCAAAAATACAAATTTATTGTTATTGTTCTATTTTAACAATTTG-ATAGCTTCAATA
* * * *
15972 CATGATATTAAACTTGTCGGAATAATTGAACTTAGTTTCCACAGTTAATATGTATGAAAAAACTA
65 CATGATATTAAACTTGTCCGAATAATTGAACTTAGTTTCAACAGTTGATATGTATGAAAAAATTA
** *
16037 ACGTTTACGTTTATTTAACACTTTTCATGCCATTAGAAGGCAAAATGCAAAATTGATATTATTGT
130 TTGTTTACATTTATTTAA-ACTTTTC-TGCCATTA-AAGGCAAAAT-CAAAATTGAT-TTATTGT
* * * *
16102 TCTATTTTAACAGTTTAGATGGCTTCAATACATGATATTAAACTTGTTTGCATGATTGAACTTGG
190 TCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTTTGAATAATTGAACTTGG
* * **
16167 TTTCTACAGTTGATATGTGTAAAAAAGTTATCTCTTACATCTATTTGGGACTATTTTTGTC
255 TTTCTACAGTTGATATGTGTGAAAAAGTTATCT-TTACATCTGTTTAAGACT-TTTTTGTC
* * * *
16228 GTTAAAAGGCAAAAATACAAATTTACTATTATTATTCTATTTTAACAATTTGGATGGCTTCAATA
1 GTTAAAAGGCAAAAATACAAATTTATTGTTATTGTTCTATTTTAACAATTT-GATAGCTTCAATA
* * ** * * * *
16293 CATGGTATTAAACTTTTTTGAATAATTGAACTTAGTTTTAACAGTTGATATATGTGAAAAAATTG
65 CATGATATTAAACTTGTCCGAATAATTGAACTTAGTTTCAACAGTTGATATGTATGAAAAAATTA
* * * *
16358 TTGTTTACCTTTGTTTAGAATTTTTCTGGTCATTAAAAGGCAAAAAT-ATAAATT-ATTGCTATT
130 TTGTTTACATTTATTTA-AACTTTTCT-GCCATT-AAAGGC-AAAATCA-AAATTGATT--TATT
* * *
16421 GTTCTGTTTTAACAGTTTGGATAGCTTCAATATATGATATTAAACTTTTTTGAATAATTGAACTT
188 GTTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTTTGAATAATTGAACTT
* * * * *
16486 GGTTT-TCACAGTTGATATATGTGACAAAGTTATTGTTTACCTCTGTTTATGACTTTTTT-TGC
253 GGTTTCT-ACAGTTGATATGTGTGAAAAAGTTA-TCTTTACATCTGTTTAAGACTTTTTTGT-C
* * *
16548 TGTTAAAAGGCAAAAATACAAAGTTGTTGTTATTGTTCTGTTTTAACAATTTAGATAGCTTCAAT
1 -GTTAAAAGGCAAAAATACAAATTTATTGTTATTGTTCTATTTTAACAATTT-GATAGCTTCAAT
* *
16613 ACATGATATTAAACTTGTCCAAATGATTGA
64 ACATGATATTAAACTTGTCCGAATAATTGA
16643 TATGTGTGAA
Statistics
Matches: 602, Mismatches: 109, Indels: 47
0.79 0.14 0.06
Matches are distributed among these distances:
317 31 0.05
318 124 0.21
319 10 0.02
320 13 0.02
321 410 0.68
322 14 0.02
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.43
Consensus pattern (313 bp):
GTTAAAAGGCAAAAATACAAATTTATTGTTATTGTTCTATTTTAACAATTTGATAGCTTCAATAC
ATGATATTAAACTTGTCCGAATAATTGAACTTAGTTTCAACAGTTGATATGTATGAAAAAATTAT
TGTTTACATTTATTTAAACTTTTCTGCCATTAAAGGCAAAATCAAAATTGATTTATTGTTCTATT
TTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTTTGAATAATTGAACTTGGTTTCTA
CAGTTGATATGTGTGAAAAAGTTATCTTTACATCTGTTTAAGACTTTTTTGTC
Found at i:18742 original size:31 final size:33
Alignment explanation
Indices: 18696--18761 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
18686 GTAAAAACAA
*
18696 ATTTTTTTTCAATTTT-CTATTTTTTTATATATT
1 ATTTTTTTT-AATTTTACTATTTTGTTATATATT
18729 ATTTTTTTT-ATTTTGACTATTTTGTTATATATT
1 ATTTTTTTTAATTTT-ACTATTTTGTTATATATT
18762 CATGCATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 5 0.17
33 25 0.83
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (33 bp):
ATTTTTTTTAATTTTACTATTTTGTTATATATT
Found at i:19294 original size:30 final size:30
Alignment explanation
Indices: 19258--19357 Score: 94
Period size: 30 Copynumber: 3.3 Consensus size: 30
19248 GCCCCAAATT
* **
19258 AAACCCTAAACCTTTTCAACCCTAAAAGTG
1 AAACCCTAAACCCTTTCAACCCTAAAAACG
* *
19288 AAACCCTAAACCCTTTGAACCTTAAAAACG
1 AAACCCTAAACCCTTTCAACCCTAAAAACG
* *** *
19318 AAACCTTAAACCCTCAAAACCCTAAAATC-
1 AAACCCTAAACCCTTTCAACCCTAAAAACG
19347 AAATCCCTAAA
1 AAA-CCCTAAA
19358 ACATCTAAAC
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 3 0.05
30 54 0.95
ACGTcount: A:0.45, C:0.31, G:0.04, T:0.20
Consensus pattern (30 bp):
AAACCCTAAACCCTTTCAACCCTAAAAACG
Found at i:19439 original size:7 final size:7
Alignment explanation
Indices: 19417--19463 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
19407 CAAAACCCTT
19417 AAAATCC
1 AAAATCC
19424 AAAATTCC
1 AAAA-TCC
*
19432 AAACTCC
1 AAAATCC
19439 AAAATCC
1 AAAATCC
19446 AAAA-CC
1 AAAATCC
19452 TAAAAATCC
1 --AAAATCC
19461 AAA
1 AAA
19464 GGTAAAAACC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
6 2 0.06
7 20 0.59
8 10 0.29
9 2 0.06
ACGTcount: A:0.57, C:0.28, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATCC
Found at i:20065 original size:14 final size:14
Alignment explanation
Indices: 20048--20080 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
20038 ATTTCTAAAT
*
20048 AAATAATTTAAACA
1 AAATAATTTAAAAA
20062 AAAT-ATTTAAAAA
1 AAATAATTTAAAAA
20075 AAATAA
1 AAATAA
20081 AGGGAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
AAATAATTTAAAAA
Found at i:25946 original size:13 final size:12
Alignment explanation
Indices: 25916--25958 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
25906 AATGAGGCAT
* *
25916 AAAAAAATAAAA
1 AAAAAAAGAGAA
25928 ATAAAAAAGAGTAA
1 A-AAAAAAGAG-AA
25942 AAAAAAAGAGAA
1 AAAAAAAGAGAA
25954 AAAAA
1 AAAAA
25959 TAAAAAGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 8 0.30
13 16 0.59
14 3 0.11
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (12 bp):
AAAAAAAGAGAA
Found at i:26858 original size:83 final size:85
Alignment explanation
Indices: 26706--26868 Score: 206
Period size: 83 Copynumber: 1.9 Consensus size: 85
26696 GCCATGTTTA
* * * * *
26706 AAAAGATTTTCAAATTTTTAAAGTTTTATTGCCTCTAATTAGGAGGAGCATTCAAAGATTTTGAG
1 AAAAGATTTTCAAATTTTTAAAGCTTCATTACCTCTAATTAGAAGGAGCATTCAAAAATTTTGAG
26771 ATTTGTAAGA-CTTTTGGAT
66 ATTTGTAAGATCTTTTGGAT
* * * *
26790 AAAAGATTTTC-AATTTTTCAAAGCTTCGTTACCTCTTATTA-AAGGAGTATTTAAAAATTTTGA
1 AAAAGATTTTCAAATTTTT-AAAGCTTCATTACCTCTAATTAGAAGGAGCATTCAAAAATTTTGA
*
26853 TATTTGTAAGATCTTT
65 GATTTGTAAGATCTTT
26869 GGGCATAATC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 35 0.52
84 32 0.48
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (85 bp):
AAAAGATTTTCAAATTTTTAAAGCTTCATTACCTCTAATTAGAAGGAGCATTCAAAAATTTTGAG
ATTTGTAAGATCTTTTGGAT
Found at i:26907 original size:22 final size:22
Alignment explanation
Indices: 26860--26907 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
26850 TGATATTTGT
* *
26860 AAGATCTTTGGGCATAATCTCT
1 AAGATCTTTAGGCATAATCTCC
26882 AAGATCTTTAGGCATAA-CTTCC
1 AAGATCTTTAGGCATAATC-TCC
26904 AAGA
1 AAGA
26908 CCTTCGGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (22 bp):
AAGATCTTTAGGCATAATCTCC
Found at i:26937 original size:127 final size:127
Alignment explanation
Indices: 26790--27140 Score: 445
Period size: 127 Copynumber: 2.8 Consensus size: 127
26780 ACTTTTGGAT
* * * * * * *
26790 AAAAGATTTTCAATTTTTCAAAGCTTCGTTACCTCTTATTAAAGGAGTATTTAAAAATTTTGATA
1 AAAAGATTTTTAAATTTTCAAAGTTTCATTACCTCTAATTAAAGGAGCATTTAAAGATTTTGATA
* * * **
26855 TTTGTAAGATCTTTGGGCATAATCTCTAAGATCTTTAG-GCATAACTTCCAAGACCTTCGGGC
66 TTTGTAAGACCTCTGGGCATAATCTCTAAGAT-TTTAGAGCACAACTTCCAAGACCTTCAAGC
* * *
26917 AAAAGATTTTTAAATTTTCAAAGTTTCATTGCCTCTAATTAGAGGAGCATTTAAAGATTTCGATA
1 AAAAGATTTTTAAATTTTCAAAGTTTCATTACCTCTAATTAAAGGAGCATTTAAAGATTTTGATA
*
26982 TTTGTAAGACCTCTGGGCATAATCTCTAAGATTTTCGAGCACAACTTCCAAGACCTTCAAGC
66 TTTGTAAGACCTCTGGGCATAATCTCTAAGATTTTAGAGCACAACTTCCAAGACCTTCAAGC
* * *
27044 AAAAGATTTTTAAATTTTTAAAGTTTAATTACCTCTAATTAGGAA-GAGCATTCAAAGATTTTGA
1 AAAAGATTTTTAAATTTTCAAAGTTTCATTACCTCTAATTA--AAGGAGCATTTAAAGATTTTGA
* * * * *
27108 GATTTGTAAAACCTCCGGACATAATCTTTAAGA
64 TATTTGTAAGACCTCTGGGCATAATCTCTAAGA
27141 CCTCCAAGTA
Statistics
Matches: 194, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
126 4 0.02
127 144 0.74
128 45 0.23
129 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (127 bp):
AAAAGATTTTTAAATTTTCAAAGTTTCATTACCTCTAATTAAAGGAGCATTTAAAGATTTTGATA
TTTGTAAGACCTCTGGGCATAATCTCTAAGATTTTAGAGCACAACTTCCAAGACCTTCAAGC
Found at i:27233 original size:105 final size:106
Alignment explanation
Indices: 27031--27255 Score: 344
Period size: 105 Copynumber: 2.1 Consensus size: 106
27021 CACAACTTCC
* * *
27031 AAGACCTTCAAGCAAAAGATTTTTAAATTTTTAAAGTTTAATTACCTCTAATTAGGAAGAGCATT
1 AAGACCTCCAAGCAAAAGATTTTAAAATTTTTAAAGTTTAATTACCTCTAATTAGAAAGAGCATT
*
27096 CAAAGATTTTGAGATTTGTAAAACCTCCGGACATAATCTTT
66 CAAAGATTTTGAGATTTGTAAAACCTCCGGACATAATCTCT
* * *
27137 AAGACCTCCAAGTAAAAGATTTTAAAATTTTTAAAGTTTCATTACCTCTGATTA-AAAGAGCATT
1 AAGACCTCCAAGCAAAAGATTTTAAAATTTTTAAAGTTTAATTACCTCTAATTAGAAAGAGCATT
* * **
27201 TAAAGATTTTGAGATTTGTAAGACCTTTGGACATAATCTCT
66 CAAAGATTTTGAGATTTGTAAAACCTCCGGACATAATCTCT
27242 AAGACCTCCAAGCA
1 AAGACCTCCAAGCA
27256 TAACTTTTAA
Statistics
Matches: 107, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
105 58 0.54
106 49 0.46
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (106 bp):
AAGACCTCCAAGCAAAAGATTTTAAAATTTTTAAAGTTTAATTACCTCTAATTAGAAAGAGCATT
CAAAGATTTTGAGATTTGTAAAACCTCCGGACATAATCTCT
Found at i:27311 original size:233 final size:230
Alignment explanation
Indices: 26893--27673 Score: 823
Period size: 233 Copynumber: 3.4 Consensus size: 230
26883 AGATCTTTAG
* ** * *
26893 GCATAACTTCCAAGACCTTCGGGCAAAAGATTTTTAAATTTTCAAAGTTTCATTGCCTCTAATTA
1 GCATAACTTCCAAGACCTCCAAGCAAAAGATTTTTAAATTTTTAAAGTTTCATTGCCTCTGATTA
* * * ** *
26958 GAGGAGCATTTAAAGATTTCGATATTTGTAAGACCTCTGGGCATAATCTCTAAGATTTTCGAGCA
66 GAAGAGCATTTAAAGATTTTGAGATTTGTAAGACCT-T-GGCATAATCTCTAAGACCTCCGAGCA
* ** *
27023 CAACTTCCAAGACCTTCAAGCAAAAGATTTTTAAATTTTTAAAGTTTAATTACCTCTAATTAGGA
129 CAACTTCTAAGACCTTTGAGCAAAAGATTTTTAAATTTTTAAAGTTTTATTACCTCTAATTA-GA
*
27088 AGAGCATTCAAAGATTTTGAGATTTGTAAAACCTCCG-
193 AGAGCATTCAAAGATTTTGAGATTTGTAAGACCTCCGA
* * * *
27125 GACATAATCTT-TAAGACCTCCAAGTAAAAGATTTTAAAATTTTTAAAGTTTCATTACCTCTGAT
1 G-CATAA-CTTCCAAGACCTCCAAGCAAAAGATTTTTAAATTTTTAAAGTTTCATTGCCTCTGAT
* *
27189 TAAAAGAGCATTTAAAGATTTTGAGATTTGTAAGACCTTTGGACATAATCTCTAAGACCTCCAAG
64 TAGAAGAGCATTTAAAGATTTTGAGATTTGTAAGACC-TTGG-CATAATCTCTAAGACCTCCGAG
* * * * * *
27254 CATAACTTTTAAAACCTTTGGGCAAAAGATTTTCAAATTTTTAAAGTTTTATTACCTCTTATTAG
127 CACAACTTCTAAGACCTTTGAGCAAAAGATTTTTAAATTTTTAAAGTTTTATTACCTCTAATTAG
* * * * *
27319 AGGCGTATTCAAAGATTTTGATATTTGTAAGACCTCTGA
192 AAGAGCATTCAAAGATTTTGAGATTTGTAAGACCTCCGA
* * * *
27358 GCACAACTTCCAAGACCTCCTAGCAAAAGATTTTCAAATTTTTAAAGTTTCATTGCCTTTGATTA
1 GCATAACTTCCAAGACCTCCAAGCAAAAGATTTTTAAATTTTTAAAGTTTCATTGCCTCTGATTA
* * * * * * * * *
27423 TGAGGAGCATTCAAAGATTTTGATATTTATACGAAC-T--C-CAA--GC--ATACCTCCGAGCAC
66 -GAAGAGCATTTAAAGATTTTGAGATTTGTAAGACCTTGGCATAATCTCTAAGACCTCCGAGCAC
* * * *
27480 AACTTCTAAGACCTCTGAGCAAAATATTTTTAAATTTTTAAAG-TTTATTGCCTCTGATTATG-A
130 AACTTCTAAGACCTTTGAGCAAAAGATTTTTAAATTTTTAAAGTTTTATTACCTCTAATTA-GAA
* *
27543 GAAGCATTCAAAGATTTTGAGATTTGTAAGATCTCCAA
194 G-AGCATTCAAAGATTTTGAGATTTGTAAGACCTCCGA
* *** * * *
27581 GTATAACTTCCAAGACCTCTGGGCAAAAGATTTTTAAATTTTTAAAATTTTATTGCCTTTGATTA
1 GCATAACTTCCAAGACCTCCAAGCAAAAGATTTTTAAATTTTTAAAGTTTCATTGCCTCTGATTA
*
27646 TG-AGAAGCATTAAAAGATTTTGAGATTT
66 -GAAG-AGCATTTAAAGATTTTGAGATTT
27674 CTAATATCTT
Statistics
Matches: 461, Mismatches: 78, Indels: 29
0.81 0.14 0.05
Matches are distributed among these distances:
222 17 0.04
223 159 0.34
225 1 0.00
227 2 0.00
228 1 0.00
231 4 0.01
232 89 0.19
233 184 0.40
234 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Consensus pattern (230 bp):
GCATAACTTCCAAGACCTCCAAGCAAAAGATTTTTAAATTTTTAAAGTTTCATTGCCTCTGATTA
GAAGAGCATTTAAAGATTTTGAGATTTGTAAGACCTTGGCATAATCTCTAAGACCTCCGAGCACA
ACTTCTAAGACCTTTGAGCAAAAGATTTTTAAATTTTTAAAGTTTTATTACCTCTAATTAGAAGA
GCATTCAAAGATTTTGAGATTTGTAAGACCTCCGA
Found at i:27373 original size:127 final size:127
Alignment explanation
Indices: 27150--27382 Score: 317
Period size: 127 Copynumber: 1.8 Consensus size: 127
27140 ACCTCCAAGT
*
27150 AAAAGATTTTAAAATTTTTAAAGTTTCATTACCTCTGATTAAAAGAGCATTTAAAGATTTTGAGA
1 AAAAGATTTTAAAATTTTTAAAGTTTCATTACCTCTGATTAAAAGAGCATTCAAAGATTTTGAGA
* *
27215 TTTGTAAGACCTTTGGACATAATCTCTAAGACCTCCAAGCATAACTTTTAAAACCTTTGGGC
66 TTTGTAAGACCTCTGGACATAATCTCCAAGACCTCCAAGCATAACTTTTAAAACCTTTGGGC
* * * * * * * *
27277 AAAAGATTTTCAAATTTTTAAAGTTTTATTACCTCTTATTAGAGGCGTATTCAAAGATTTTGATA
1 AAAAGATTTTAAAATTTTTAAAGTTTCATTACCTCTGATTAAAAGAGCATTCAAAGATTTTGAGA
* *
27342 TTTGTAAGACCTCT-GAGCACAA-CTTCCAAGACCTCCTAGCA
66 TTTGTAAGACCTCTGGA-CATAATC-TCCAAGACCTCCAAGCA
27383 AAAGATTTTC
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
126 3 0.03
127 88 0.97
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (127 bp):
AAAAGATTTTAAAATTTTTAAAGTTTCATTACCTCTGATTAAAAGAGCATTCAAAGATTTTGAGA
TTTGTAAGACCTCTGGACATAATCTCCAAGACCTCCAAGCATAACTTTTAAAACCTTTGGGC
Found at i:27669 original size:106 final size:105
Alignment explanation
Indices: 27480--27682 Score: 325
Period size: 106 Copynumber: 1.9 Consensus size: 105
27470 CTCCGAGCAC
* *
27480 AACTTCTAAGACCTCTGAGCAAAATATTTTTAAATTTTTAAAGTTTATTGCCTCTGATTATGAGA
1 AACTTCCAAGACCTCTGAGCAAAAGATTTTTAAATTTTTAAAGTTTATTGCCTCTGATTATGAGA
* *
27545 AGCATTCAAAGATTTTGAGATTTGTAAGATCTCCAAGTAT
66 AGCATTAAAAGATTTTGAGATTTCTAAGATCTCCAAGTAT
* * *
27585 AACTTCCAAGACCTCTGGGCAAAAGATTTTTAAATTTTTAAAATTTTATTGCCTTTGATTATGAG
1 AACTTCCAAGACCTCTGAGCAAAAGATTTTTAAATTTTT-AAAGTTTATTGCCTCTGATTATGAG
*
27650 AAGCATTAAAAGATTTTGAGATTTCTAATATCT
65 AAGCATTAAAAGATTTTGAGATTTCTAAGATCT
27683 TTAGGCATGA
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
105 36 0.40
106 53 0.60
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (105 bp):
AACTTCCAAGACCTCTGAGCAAAAGATTTTTAAATTTTTAAAGTTTATTGCCTCTGATTATGAGA
AGCATTAAAAGATTTTGAGATTTCTAAGATCTCCAAGTAT
Found at i:28056 original size:105 final size:107
Alignment explanation
Indices: 27831--28061 Score: 276
Period size: 105 Copynumber: 2.2 Consensus size: 107
27821 GCATGATTAC
* * *
27831 TAAAACCTTCAGGCACAA-CTTTCAAGACCTTCAGACAAAAGATTTTTTAAAATTTTAAAGTTTC
1 TAAAACCTTCGGGCATAATCTCTCAAGACCTTCAGACAAAAGATTTTTTAAAATTTTAAAGTTTC
* *
27895 ATTGCTTCTGATTAAAAAGAGCATTCAAAGATTTTAAATTTTG
66 ATTACCTCTGATT-AAAAGAGCATTCAAAGATTTTAAATTTTG
* * *
27938 TAAGACCTCCGGGCATAATCTCT-AAGACCTTCGGACAAAAGA-TTTTT-AAATTTTCAAAGTTT
1 TAAAACCTTCGGGCATAATCTCTCAAGACCTTCAGACAAAAGATTTTTTAAAATTTT-AAAGTTT
* * **
28000 CATTACCTCTTATT-AGAGTAGCATTCAAAGATTTTGTGATTTT-
65 CATTACCTCTGATTAAAAG-AGCATTCAAAGATTTT-AAATTTTG
28043 TAAAACCTTCGGGCATAAT
1 TAAAACCTTCGGGCATAAT
28062 TTTGATTTAC
Statistics
Matches: 106, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
104 3 0.03
105 40 0.38
106 28 0.26
107 32 0.30
108 3 0.03
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (107 bp):
TAAAACCTTCGGGCATAATCTCTCAAGACCTTCAGACAAAAGATTTTTTAAAATTTTAAAGTTTC
ATTACCTCTGATTAAAAGAGCATTCAAAGATTTTAAATTTTG
Found at i:28153 original size:88 final size:86
Alignment explanation
Indices: 28037--28240 Score: 225
Period size: 88 Copynumber: 2.3 Consensus size: 86
28027 AAGATTTTGT
* * * * **
28037 GATTTTTAAAACCTTCGGGCATAATTTTGATT-TACAGTGTTATCCCGATTGATTTTTTATTTTT
1 GATTTTTAAGACCTTCGAGCATAATTTTGATTCT-C-GGGTTATCCCGATCGATTCCTTATTTTT
*
28101 TGACCTGCA-GTGTTGTCTC-GATC
64 TGACCTG-AGGTGTTGTCCCAG-TC
*
28124 GATTTTGTAAGACCTTCAAGCATAATTTTGATTCGTCGGGTTATCCCGATCGATTCCTTATTTTT
1 GATTTT-TAAGACCTTCGAGCATAATTTTGATTC-TCGGGTTATCCCGATCGATTCCTTATTTTT
*
28189 TTACCTGAGGTGTTGTCCCAGTC
64 TGACCTGAGGTGTTGTCCCAGTC
* *
28212 GATTTTTTAAGACCTCCGAGCATGATTTT
1 GA-TTTTTAAGACCTTCGAGCATAATTTT
28241 TAAGACCTCT
Statistics
Matches: 99, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
87 7 0.07
88 85 0.86
89 6 0.06
90 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (86 bp):
GATTTTTAAGACCTTCGAGCATAATTTTGATTCTCGGGTTATCCCGATCGATTCCTTATTTTTTG
ACCTGAGGTGTTGTCCCAGTC
Found at i:28271 original size:23 final size:22
Alignment explanation
Indices: 28215--28292 Score: 88
Period size: 22 Copynumber: 3.5 Consensus size: 22
28205 CCCAGTCGAT
*
28215 TTTTTAAGACCTC-CGAGCATGA
1 TTTTTAAGACCTCTAGA-CATGA
28237 TTTTTAAGACCTCTAGACATGA
1 TTTTTAAGACCTCTAGACATGA
* *
28259 TTCTGTAAGACCT-TCAGGCATGA
1 TT-TTTAAGACCTCT-AGACATGA
28282 TTTTTAAGACC
1 TTTTTAAGACC
28293 CCTGGGCATA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
22 29 0.59
23 20 0.41
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35
Consensus pattern (22 bp):
TTTTTAAGACCTCTAGACATGA
Found at i:28300 original size:22 final size:22
Alignment explanation
Indices: 28215--28306 Score: 80
Period size: 22 Copynumber: 4.1 Consensus size: 22
28205 CCCAGTCGAT
*
28215 TTTTTAAGACCTCCGA-GCATGA
1 TTTTTAAGACC-CCTAGGCATGA
* *
28237 TTTTTAAGACCTCTAGACATGA
1 TTTTTAAGACCCCTAGGCATGA
* *
28259 TTCTGTAAGA-CCTTCAGGCATGA
1 TT-TTTAAGACCCCT-AGGCATGA
* *
28282 TTTTTAAGACCCCTGGGCATAA
1 TTTTTAAGACCCCTAGGCATGA
28304 TTT
1 TTT
28307 CGATTCGCGG
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
21 2 0.04
22 35 0.64
23 18 0.33
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (22 bp):
TTTTTAAGACCCCTAGGCATGA
Found at i:28411 original size:23 final size:23
Alignment explanation
Indices: 28367--28426 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
28357 TATCCTAGTC
* *
28367 GATTCTGTAAGACCTTCGGGCAT
1 GATTCTATAAGACCTTCAGGCAT
28390 GATTCTATAAGA-CTTCTAGGCAT
1 GATTCTATAAGACCTTC-AGGCAT
* *
28413 AATT-TTTAAGACCT
1 GATTCTATAAGACCT
28427 CCGAACATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 10 0.32
23 21 0.68
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (23 bp):
GATTCTATAAGACCTTCAGGCAT
Found at i:28446 original size:23 final size:23
Alignment explanation
Indices: 28409--28464 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
28399 AGACTTCTAG
28409 GCATAATTTT-TAAGACCTCCGAA
1 GCATAATTTTGTAAGACCTCC-AA
*
28432 -CATGATTTTGTAAGACCTCCAA
1 GCATAATTTTGTAAGACCTCCAA
28454 GCATAATTTTG
1 GCATAATTTTG
28465 ATTTACGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (23 bp):
GCATAATTTTGTAAGACCTCCAA
Found at i:28560 original size:23 final size:23
Alignment explanation
Indices: 28530--28604 Score: 84
Period size: 22 Copynumber: 3.3 Consensus size: 23
28520 GTCGATTCTA
*
28530 TAAGACCTCTGAGTATTATTTTG
1 TAAGACCTCTGAGCATTATTTTG
28553 TAAGACCTCCTGA-CATTATTTT-
1 TAAGACCT-CTGAGCATTATTTTG
* * *
28575 TAAAACCTCCGAGCATAATTTTG
1 TAAGACCTCTGAGCATTATTTTG
28598 -AAGACCT
1 TAAGACCT
28605 TCGGGCATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.07
22 21 0.48
23 16 0.36
24 4 0.09
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (23 bp):
TAAGACCTCTGAGCATTATTTTG
Found at i:28595 original size:22 final size:22
Alignment explanation
Indices: 28530--28618 Score: 81
Period size: 22 Copynumber: 4.0 Consensus size: 22
28520 GTCGATTCTA
* * *
28530 TAAGACCTCTGAGTATTATTTT
1 TAAGACCTCCGAGCATAATTTT
*
28552 GTAAGACCTCCTGA-CATTATTTT
1 -TAAGACCTCC-GAGCATAATTTT
*
28575 TAAAACCTCCGAGCATAATTTT
1 TAAGACCTCCGAGCATAATTTT
* * *
28597 GAAGACCTTCGGGCATAATTTT
1 TAAGACCTCCGAGCATAATTTT
28619 GATTCATAGT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
21 2 0.04
22 35 0.62
23 17 0.30
24 2 0.04
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (22 bp):
TAAGACCTCCGAGCATAATTTT
Found at i:28711 original size:22 final size:22
Alignment explanation
Indices: 28677--28803 Score: 98
Period size: 22 Copynumber: 5.6 Consensus size: 22
28667 TATCCCAATC
28677 GATTTTGTAAGACCTCCGAGCAT
1 GATTTT-TAAGACCTCCGAGCAT
*
28700 GATTTTTAAGACCTCTG-GACAT
1 GATTTTTAAGACCTCCGAG-CAT
* *
28722 GAGATTTGTAAGACCTCCAAGCAT
1 --GATTTTTAAGACCTCCGAGCAT
* * *
28746 AATCTCTAAGACCTCCG-GACAT
1 GATTTTTAAGACCTCCGAG-CAT
* *
28768 GATTTTGTAAGACCTTC-ATGGAT
1 GATTTT-TAAGACCTCCGA-GCAT
28791 GATTTTTAAGACC
1 GATTTTTAAGACC
28804 GCTAGGTATA
Statistics
Matches: 83, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
21 2 0.02
22 39 0.47
23 23 0.28
24 18 0.22
25 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (22 bp):
GATTTTTAAGACCTCCGAGCAT
Found at i:28730 original size:46 final size:44
Alignment explanation
Indices: 28680--28803 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 44
28670 CCCAATCGAT
*
28680 TTTGTAAGACCTCCGAGCATGATTTTTAAGACCTCTGGACATGAGA
1 TTTGTAAGACCTCC-AGCATGATTTTTAAGACCTCCGGACATGA-A
* * * *
28726 TTTGTAAGACCTCCAAGCATAATCTCTAAGACCTCCGGACATGAT
1 TTTGTAAGACCTCC-AGCATGATTTTTAAGACCTCCGGACATGAA
* *
28771 TTTGTAAGACCTTCATGGATGATTTTTAAGACC
1 TTTGTAAGACCTCCA-GCATGATTTTTAAGACC
28804 GCTAGGTATA
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 1 0.02
45 26 0.39
46 39 0.59
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
TTTGTAAGACCTCCAGCATGATTTTTAAGACCTCCGGACATGAA
Found at i:28736 original size:311 final size:310
Alignment explanation
Indices: 28124--28739 Score: 705
Period size: 311 Copynumber: 2.0 Consensus size: 310
28114 TGTCTCGATC
*
28124 GATTTTGTAAGACCTTCAAGCATAATTTTGATTCGTCGGGTTATCCCGATCGATTCCTTATTTTT
1 GATTTTGTAAGACCTCCAAGCATAATTTTGATTC-TCGGGTTATCCCGATCGATTCCTTATTTTT
* * * *
28189 TTACCTGAGGTGTTGTCCCAGTCGATTTTTTAAGACCTCCGAGCATGATTTTTAAGACCTCTAGA
65 TGACCTGAGGTGTTATCCCAGTCGATTCTATAAGACCTCCGAGCATGATTTTTAAGACCTCTAGA
* * * * * *
28254 CATGATTCTGTAAGACCTTCAGGCATGATTTTTAAGACCCCTGGGCATAATTTCGATTCGCGGTG
130 CATGATTCTGTAAAACCTCCAGGCATAATTTTGAAGACCCCTGGGCATAATTTCGATTCACAGTG
* * * *
28319 TTATCTGAATCAATTTCTTATTCTTTAACTTACGATGTTATCCTAGTCGATTCTGTAAGACCTTC
195 TCATCTGAATCAATTTCTTATTCTTTAACTTACGATGTTATCCCAATCGATTCTGTAAGACCTCC
* * *
28384 GGGCATGATTCTATAAGACTTCTAGGCATAATTTTTAAGACCTCCGAACAT
260 GAGCATGATTCTATAAGACCTCTAGGCATAATTTGTAAGACCTCCGAACAT
* * *
28435 GATTTTGTAAGACCTCCAAGCATAATTTTGATT-TACGGTGTTATCTCGATTGATTTCTTATTTT
1 GATTTTGTAAGACCTCCAAGCATAATTTTGATTCT-CGG-GTTATCCCGATCGATTCCTTATTTT
* * * *
28499 TTGA-CTTACGGTGTTATCCCAGTCGATTCTATAAGACCTCTGAGTATTATTTTGTAAGACCTCC
64 TTGACCTGA-GGTGTTATCCCAGTCGATTCTATAAGACCTCCGAGCATGATTTT-TAAGACCT-C
* * * *
28563 T-GACATTATT-TTTAAAACCTCC-GAGCATAATTTTGAAGA-CCTTCGGGCATAATTTTGATTC
126 TAGACATGATTCTGTAAAACCTCCAG-GCATAATTTTGAAGACCCCT-GGGCATAATTTCGATTC
* * * * * * *
28624 ATAGTGTCGTCCTG-ATCAATTTTTTATTTTTTGA-TTGC-AGTGTTATCCCAATCGATTTTGTA
189 ACAGTGTCAT-CTGAATCAATTTCTTATTCTTTAACTTACGA-TGTTATCCCAATCGATTCTGTA
*
28686 AGACCTCCGAGCATGATT-TTTAAGACCTCT-GGACATGAGATTTGTAAGACCTCC
252 AGACCTCCGAGCATGATTCTATAAGACCTCTAGG-CAT-A-ATTTGTAAGACCTCC
28740 AAGCATAATC
Statistics
Matches: 256, Mismatches: 37, Indels: 24
0.81 0.12 0.08
Matches are distributed among these distances:
308 2 0.01
309 15 0.06
310 49 0.19
311 169 0.66
312 19 0.07
313 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (310 bp):
GATTTTGTAAGACCTCCAAGCATAATTTTGATTCTCGGGTTATCCCGATCGATTCCTTATTTTTT
GACCTGAGGTGTTATCCCAGTCGATTCTATAAGACCTCCGAGCATGATTTTTAAGACCTCTAGAC
ATGATTCTGTAAAACCTCCAGGCATAATTTTGAAGACCCCTGGGCATAATTTCGATTCACAGTGT
CATCTGAATCAATTTCTTATTCTTTAACTTACGATGTTATCCCAATCGATTCTGTAAGACCTCCG
AGCATGATTCTATAAGACCTCTAGGCATAATTTGTAAGACCTCCGAACAT
Found at i:28746 original size:155 final size:152
Alignment explanation
Indices: 28125--28774 Score: 567
Period size: 155 Copynumber: 4.2 Consensus size: 152
28115 GTCTCGATCG
* ** * * * *
28125 ATTTTGTAAGACCTTCAAGCATAATTTTGATTCGTCGG-GTTATCCCGATCGATTCCTTATTTTT
1 ATTTTG-AAGACCTCCGGGCATAATTTTGATTC-ACGGTGTTAT-CTGATCAATTTCTTATTTTT
* * * * * * *
28189 TTACCTGAGGTGTTGTCCCAGTCGATTTTTTAAGACCTCCGAGCATGATTTTTAAGACCTCTAGA
63 TGA-CTTACGTGTTATCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTTTAAGACCTCTGGA
* * *
28254 CATGATTCTGTAAGACCTTCAGGCATG
127 CATGATT-TGTAAGACCTCCAAGCATA
* * * *
28281 ATTTTTAAGACC-CCTGGGCATAATTTCGATTCGCGGTGTTATCTGAATCAATTTCTTATTCTTT
1 ATTTTGAAGACCTCC-GGGCATAATTTTGATTCACGGTGTTATCTG-ATCAATTTCTTATTTTTT
* * * * * *
28345 AACTTACGATGTTATCCTAGTCGATTCTGTAAGACCTTCGGGCATGATTCTATAAGACTTCTAGG
64 GACTTACG-TGTTATCCCAGTCGATTCTGTAAGACCTCCGAGCATGATT-TTTAAGACCTCT-GG
* * *
28410 -CATAATTTTTAAGACCTCCGAA-CATG
126 ACATGATTTGTAAGACCTCC-AAGCATA
** * **
28436 ATTTTGTAAGACCTCCAAGCATAATTTTGATTTACGGTGTTATCTCGATTGATTTCTTATTTTTT
1 ATTTTG-AAGACCTCCGGGCATAATTTTGATTCACGGTGTTATCT-GATCAATTTCTTATTTTTT
* * * *
28501 GACTTACGGTGTTATCCCAGTCGATTCTATAAGACCTCTGAGTATTATTTTGTAAGACCTCCT-G
64 GACTTAC-GTGTTATCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTT-TAAGACCT-CTGG
* * * *
28565 ACATTATTTTTAAAACCTCCGAGCATA
126 ACATGATTTGTAAGACCTCCAAGCATA
* ** ** *
28592 ATTTTGAAGACCTTCGGGCATAATTTTGATTCATAGTGTCGTCCTGATCAATTTTTTATTTTTTG
1 ATTTTGAAGACCTCCGGGCATAATTTTGATTCACGGTGTTAT-CTGATCAATTTCTTATTTTTTG
* * *
28657 A-TTGCAGTGTTATCCCAATCGATTTTGTAAGACCTCCGAGCATGATTTTTAAGACCTCTGGACA
65 ACTTAC-GTGTTATCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTTTAAGACCTCTGGACA
28721 TGAGATTTGTAAGACCTCCAAGCATA
129 T--GATTTGTAAGACCTCCAAGCATA
* * *
28747 ATCTCT-AAGACCTCCGGACATGATTTTG
1 AT-TTTGAAGACCTCCGGGCATAATTTTG
28775 TAAGACCTTC
Statistics
Matches: 398, Mismatches: 76, Indels: 41
0.77 0.15 0.08
Matches are distributed among these distances:
152 2 0.01
153 13 0.03
154 50 0.13
155 183 0.46
156 143 0.36
157 7 0.02
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (152 bp):
ATTTTGAAGACCTCCGGGCATAATTTTGATTCACGGTGTTATCTGATCAATTTCTTATTTTTTGA
CTTACGTGTTATCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTTTAAGACCTCTGGACATG
ATTTGTAAGACCTCCAAGCATA
Found at i:30278 original size:17 final size:19
Alignment explanation
Indices: 30258--30306 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
30248 AATGTTGAAT
30258 TTTTTTATATATT-A-TTA
1 TTTTTTATATATTGAGTTA
* *
30275 TTTTTGT-TATTTTGAGTTT
1 TTTTT-TATATATTGAGTTA
30294 TTTTTTATATATT
1 TTTTTTATATATT
30307 CATGCATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
17 10 0.40
18 3 0.12
19 12 0.48
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.73
Consensus pattern (19 bp):
TTTTTTATATATTGAGTTA
Found at i:30295 original size:34 final size:33
Alignment explanation
Indices: 30235--30303 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 33
30225 AGTAAAAAAA
30235 ATTATTTTTTTGAAATGTTGAATTTTTTTATAT
1 ATTATTTTTTTGAAATGTTGAATTTTTTTATAT
** * * *
30268 ATTATTATTTTTGTTATTTTGAGTTTTTTTTTAT
1 ATTATT-TTTTTGAAATGTTGAATTTTTTTATAT
30302 AT
1 AT
30304 ATTCATGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 6 0.20
34 24 0.80
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (33 bp):
ATTATTTTTTTGAAATGTTGAATTTTTTTATAT
Found at i:30853 original size:30 final size:30
Alignment explanation
Indices: 30775--30911 Score: 93
Period size: 30 Copynumber: 4.6 Consensus size: 30
30765 CCTCCAAATT
* * *
30775 CTAAAAACGCAACCCTAAACACTTTAAACC
1 CTAAAAACGAAACCCTAAACCCTTTCAACC
* ** *
30805 C--CAAATTAAACTCTAAACCCTTTCAACC
1 CTAAAAACGAAACCCTAAACCCTTTCAACC
* *
30833 CTAAAAACGAAACCCTAAACCCTCTGAACC
1 CTAAAAACGAAACCCTAAACCCTTTCAACC
* * * * *
30863 TTAAAAATGAAATCTTAAACCC-TCCAAACC
1 CTAAAAACGAAACCCTAAACCCTTTC-AACC
*
30893 CTAAAATC-AAATCCCTAAA
1 CTAAAAACGAAA-CCCTAAA
30912 ACATCTAAAT
Statistics
Matches: 78, Mismatches: 25, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
28 21 0.27
29 3 0.04
30 54 0.69
ACGTcount: A:0.45, C:0.32, G:0.03, T:0.20
Consensus pattern (30 bp):
CTAAAAACGAAACCCTAAACCCTTTCAACC
Found at i:30983 original size:7 final size:7
Alignment explanation
Indices: 30963--31003 Score: 55
Period size: 7 Copynumber: 5.6 Consensus size: 7
30953 AAGTTTACCA
30963 AAAATCC
1 AAAATCC
30970 TAAAATCC
1 -AAAATCC
30978 AAAATCTC
1 AAAATC-C
*
30986 AAACTCC
1 AAAATCC
30993 AAAATCC
1 AAAATCC
31000 AAAA
1 AAAA
31004 CCTAAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
7 17 0.57
8 13 0.43
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.17
Consensus pattern (7 bp):
AAAATCC
Found at i:31004 original size:15 final size:15
Alignment explanation
Indices: 30963--31004 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
30953 AAGTTTACCA
30963 AAAATCCTAAAA-TCC
1 AAAATCC-AAAACTCC
30978 AAAATCTC-AAACTCC
1 AAAATC-CAAAACTCC
30993 AAAATCCAAAAC
1 AAAATCCAAAAC
31005 CTAAAAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 4 0.17
15 19 0.79
16 1 0.04
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATCCAAAACTCC
Found at i:32454 original size:34 final size:34
Alignment explanation
Indices: 32430--32494 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
32420 TTAGCAATGA
32430 TTTTT-TGATACAAACA-TCGCTAAATTAACAGAG
1 TTTTTCTGATACAAA-AGTCGCTAAATTAACAGAG
*
32463 TTTTTCTGATACAAAAGTCGCTAATTTAACAG
1 TTTTTCTGATACAAAAGTCGCTAAATTAACAG
32495 CGATTGTCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 6 0.21
34 23 0.79
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (34 bp):
TTTTTCTGATACAAAAGTCGCTAAATTAACAGAG
Found at i:33349 original size:34 final size:34
Alignment explanation
Indices: 33311--33375 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
33301 AAATAGAGTG
*
33311 ATATTTTTTTGATACAAACG-TCATTAAATTAATA
1 ATATTTTTATGATACAAACGCT-ATTAAATTAATA
* *
33345 ATATTTTTATGATATAAATGCTATTAAATTA
1 ATATTTTTATGATACAAACGCTATTAAATTA
33376 GCAGTGATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 26 0.96
35 1 0.04
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (34 bp):
ATATTTTTATGATACAAACGCTATTAAATTAATA
Found at i:37899 original size:14 final size:13
Alignment explanation
Indices: 37880--37922 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
37870 AAAATTATAT
37880 TAAATTTTGAAGAA
1 TAAATTTTGAA-AA
37894 TAAATTTTGAAAAA
1 TAAATTTTG-AAAA
*
37908 AAAATTTTGAAAA
1 TAAATTTTGAAAA
37921 TA
1 TA
37923 TAAAATAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 5 0.19
14 19 0.73
15 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (13 bp):
TAAATTTTGAAAA
Found at i:37983 original size:20 final size:20
Alignment explanation
Indices: 37940--37984 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
37930 ACTTTCAAAT
* **
37940 TTTTATTTTTAAAAATTATT
1 TTTTATTTTTAAAAATAAAA
37960 TTTTATTTTTAAAAATAAAA
1 TTTTATTTTTAAAAATAAAA
37980 TTTTA
1 TTTTA
37985 AAAACATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTATTTTTAAAAATAAAA
Found at i:42301 original size:34 final size:33
Alignment explanation
Indices: 42257--42341 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 33
42247 TATTTTGGAG
* *
42257 AATAAATTTTTAAAAGTA-CATAATAAGTTTTGAA
1 AATAAATTTTTAAAAATATCA-AATAACTTTT-AA
*
42291 AATAATTTTTTAAAAATATCAAATAACTTTTAA
1 AATAAATTTTTAAAAATATCAAATAACTTTTAA
**
42324 AATTTTATTTTTAAAAAT
1 AA-TAAATTTTTAAAAAT
42342 TAAAATTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
33 4 0.09
34 37 0.86
35 2 0.05
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (33 bp):
AATAAATTTTTAAAAATATCAAATAACTTTTAA
Found at i:43227 original size:86 final size:86
Alignment explanation
Indices: 43082--43261 Score: 360
Period size: 86 Copynumber: 2.1 Consensus size: 86
43072 TTGTTATTAT
43082 TATTTTTCGTAATATTATTTGATCGGAACTTTCCATGAATTTTAAATGATAGTGACCGAAGTAAC
1 TATTTTTCGTAATATTATTTGATCGGAACTTTCCATGAATTTTAAATGATAGTGACCGAAGTAAC
43147 TTAATTAATGCATATAATACA
66 TTAATTAATGCATATAATACA
43168 TATTTTTCGTAATATTATTTGATCGGAACTTTCCATGAATTTTAAATGATAGTGACCGAAGTAAC
1 TATTTTTCGTAATATTATTTGATCGGAACTTTCCATGAATTTTAAATGATAGTGACCGAAGTAAC
43233 TTAATTAATGCATATAATACA
66 TTAATTAATGCATATAATACA
43254 TATTTTTC
1 TATTTTTC
43262 TCCAAGTTGT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 94 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (86 bp):
TATTTTTCGTAATATTATTTGATCGGAACTTTCCATGAATTTTAAATGATAGTGACCGAAGTAAC
TTAATTAATGCATATAATACA
Found at i:43759 original size:27 final size:26
Alignment explanation
Indices: 43710--43773 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
43700 AAAAAATAAT
* * * *
43710 TTTATTAATTATTAATTATTTATTAAG
1 TTTA-TAAATATTAAATATTTATAAAA
43737 TTTATAAATATTAAATATATTATAAAA
1 TTTATAAATATTAAATAT-TTATAAAA
*
43764 TTTATTAATA
1 TTTATAAATA
43774 CAATTTTAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 12 0.39
27 19 0.61
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
TTTATAAATATTAAATATTTATAAAA
Found at i:44777 original size:20 final size:19
Alignment explanation
Indices: 44738--44777 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
44728 TATCAAATAA
*
44738 TTAATTATTAAAAATTATT
1 TTAATTATTAAAAATAATT
*
44757 TTAATATATTAATAATAATT
1 TTAAT-TATTAAAAATAATT
44777 T
1 T
44778 AAAAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAATTATTAAAAATAATT
Found at i:44785 original size:20 final size:20
Alignment explanation
Indices: 44743--44786 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
44733 AATAATTAAT
* * *
44743 TATTAAAAATTATTTTAATA
1 TATTAAAAATAATTTAAAAA
*
44763 TATTAATAATAATTTAAAAA
1 TATTAAAAATAATTTAAAAA
44783 TATT
1 TATT
44787 TTCACTTCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TATTAAAAATAATTTAAAAA
Found at i:48049 original size:39 final size:39
Alignment explanation
Indices: 47995--48074 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
47985 ATGGTCCCTC
* **
47995 TTCAAAACCCAATTGCAAGTCC-ATTGAATTTGAATGAAT
1 TTCAAAACCCAATTGCAA-ACCTATTGAATTAAAATGAAT
*
48034 TTCAAAATCCAATTGCAAACCTATTGAATTAAAATGAAT
1 TTCAAAACCCAATTGCAAACCTATTGAATTAAAATGAAT
48073 TT
1 TT
48075 GAAATTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
38 2 0.06
39 34 0.94
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (39 bp):
TTCAAAACCCAATTGCAAACCTATTGAATTAAAATGAAT
Found at i:55042 original size:116 final size:117
Alignment explanation
Indices: 54911--55145 Score: 391
Period size: 118 Copynumber: 2.0 Consensus size: 117
54901 AAATCTAAAA
* *
54911 ATGATTTATCAATTATGAAAAAATAAAAAAACAAAAACCT-AAAAAACAAAAAGAAATACATGGT
1 ATGATTTATCAATTATGAAAAAATAAAAAAACAAAAACCTAAAAAAAAAAAAAGAAACACATGGT
*
54975 GTGCCTTGATTAGTAAGTGAGTTTTAAAATAAAATGAAAATGAAAATATTTT
66 GTGCATTGATTAGTAAGTGAGTTTTAAAATAAAATGAAAATGAAAATATTTT
* * *
55027 ATGATTTATCAATTATGTAAAAATAAGAAAAGAAAAACCTAAAAAAAAAAAAAAGAAACACATGG
1 ATGATTTATCAATTATGAAAAAATAAAAAAACAAAAACCT-AAAAAAAAAAAAAGAAACACATGG
*
55092 TGTGCATTGATTAGTAAGTGAGTTTTAAAATAAAATTAAAATGAAAATATTTT
65 TGTGCATTGATTAGTAAGTGAGTTTTAAAATAAAATGAAAATGAAAATATTTT
55145 A
1 A
55146 ATTTTTTTTG
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
116 37 0.34
118 73 0.66
ACGTcount: A:0.54, C:0.06, G:0.12, T:0.28
Consensus pattern (117 bp):
ATGATTTATCAATTATGAAAAAATAAAAAAACAAAAACCTAAAAAAAAAAAAAGAAACACATGGT
GTGCATTGATTAGTAAGTGAGTTTTAAAATAAAATGAAAATGAAAATATTTT
Found at i:55292 original size:20 final size:19
Alignment explanation
Indices: 55248--55294 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
55238 AAAAGTATAA
* *
55248 AACATAT-TTTTTATTTTT
1 AACATATATTATTATTTAT
*
55266 AAAATATATTATTATATTAT
1 AACATATATTATTAT-TTAT
55286 AACATATAT
1 AACATATAT
55295 AGACACTGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 6 0.26
19 6 0.26
20 11 0.48
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (19 bp):
AACATATATTATTATTTAT
Found at i:60006 original size:11 final size:11
Alignment explanation
Indices: 59990--60019 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
59980 AAGTAACTGT
*
59990 AAAAAAAAATA
1 AAAAAAAAAGA
60001 AAAAAAAAAGA
1 AAAAAAAAAGA
60012 AAAAAAAA
1 AAAAAAAA
60020 GTTTTCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.93, C:0.00, G:0.03, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:62436 original size:41 final size:41
Alignment explanation
Indices: 62331--62451 Score: 127
Period size: 41 Copynumber: 3.0 Consensus size: 41
62321 GTTTTTAAAG
* * * * *
62331 TTTTGAAGTCTT-TGTTTAAGAGGAATCGTTCTCAATCAAGA
1 TTTTGAAG-CTTCTGTTTAAGAGGAACCTTTTTCAAACAAAA
** * *
62372 TTTCAAAGCCTCTATTTAAGAGGAACCTTTTTCAAACAAAA
1 TTTTGAAGCTTCTGTTTAAGAGGAACCTTTTTCAAACAAAA
* *
62413 TTTTGAAGCTTCTGTTTATGAGGAACCTTCTTCAAACAA
1 TTTTGAAGCTTCTGTTTAAGAGGAACCTTTTTCAAACAA
62452 GACCTTTAAA
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
40 2 0.03
41 62 0.97
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (41 bp):
TTTTGAAGCTTCTGTTTAAGAGGAACCTTTTTCAAACAAAA
Found at i:62870 original size:110 final size:109
Alignment explanation
Indices: 62705--62991 Score: 326
Period size: 110 Copynumber: 2.6 Consensus size: 109
62695 TGATTCGCGA
* * * *
62705 TGTTATCCCGATCAATTTCTTATCTTTCGACTTGCGGTGTTATCTCAGTCAATTCTGTAAGACCT
1 TGTTATCCCGATCGA-TTCTTATTTTTCGACTTGCGGTGTTATCCCAGTCGATTCTGTAAGACCT
* * * *
62770 CC-GAGCATGATTTCTAAGACC-TCTGGGCATAAATTCGATTTATGG
65 CCGGA-CATGATTTCTAAGACCTTC-GGACATAAATTCAATTCACGG
* * * *
62815 TGTTATCCCGATTGATTCTTGATTTTTTGACTTACGGTGTTATCCCAATCGATTCTGTAAGACCT
1 TGTTATCCCGATCGATTCTT-ATTTTTCGACTTGCGGTGTTATCCCAGTCGATTCTGTAAGACCT
* *
62880 CCGGACATGATTTCTAAGACCTTCGGATATAAATTCAATTCGCGG
65 CCGGACATGATTTCTAAGACCTTCGGACATAAATTCAATTCACGG
* * * * * * *
62925 TGTTATCCTGATCGATTTTTTATTTTTCAACTTGCGATGTTGTCCTAGTTGATTCTGTAAGACCT
1 TGTTATCCCGATCGA-TTCTTATTTTTCGACTTGCGGTGTTATCCCAGTCGATTCTGTAAGACCT
62990 CC
65 CC
62992 AGGCATAAAT
Statistics
Matches: 148, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
109 5 0.03
110 135 0.91
111 8 0.05
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (109 bp):
TGTTATCCCGATCGATTCTTATTTTTCGACTTGCGGTGTTATCCCAGTCGATTCTGTAAGACCTC
CGGACATGATTTCTAAGACCTTCGGACATAAATTCAATTCACGG
Found at i:63054 original size:88 final size:88
Alignment explanation
Indices: 62908--63221 Score: 364
Period size: 88 Copynumber: 3.6 Consensus size: 88
62898 ACCTTCGGAT
* ** *
62908 ATAAATTCAATTCGCGGTGTTATCCTGATCGATTTTTTATTTTTCAACTTGCGATGTTGTCCTAG
1 ATAAATTCGATTCGCGGTGTTATCCTGATCGATTCATTATTTTTCGACTTGCGATGTTGTCCTAG
*
62973 TTGATTCTGTAAGACCTCC-AGGC
66 TCGATTCTGTAAGACCTCCGA-GC
* * * * * * *
62996 ATAAATTCGATTCGTGGTGTTATCCTAATTGATTCTTTATTTTTCGATTTGTGGTGTTGTCCTAG
1 ATAAATTCGATTCGCGGTGTTATCCTGATCGATTCATTATTTTTCGACTTGCGATGTTGTCCTAG
*
63061 TCGATTCTATAAGACCTCCGAGC
66 TCGATTCTGTAAGACCTCCGAGC
* * * * * *
63084 ATAAATTTGATTCGCGGTGTTGTCCCGATCGATTCATTATTTTT-GAATTGCGATGTTATTCT-G
1 ATAAATTCGATTCGCGGTGTTATCCTGATCGATTCATTATTTTTCGACTTGCGATGTTGTCCTAG
* * *
63147 ATCGATTTTGTAAGACCTCTGCGC
66 -TCGATTCTGTAAGACCTCCGAGC
* * *
63171 ATAAATTCGATTCGCTGTGTTATCTTGATCGATTCATTATTTTTTGACTTG
1 ATAAATTCGATTCGCGGTGTTATCCTGATCGATTCATTATTTTTCGACTTG
63222 TGGTGTCATC
Statistics
Matches: 190, Mismatches: 33, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
86 1 0.01
87 71 0.37
88 117 0.62
89 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (88 bp):
ATAAATTCGATTCGCGGTGTTATCCTGATCGATTCATTATTTTTCGACTTGCGATGTTGTCCTAG
TCGATTCTGTAAGACCTCCGAGC
Found at i:63193 original size:175 final size:176
Alignment explanation
Indices: 62908--63227 Score: 423
Period size: 175 Copynumber: 1.8 Consensus size: 176
62898 ACCTTCGGAT
* ** *
62908 ATAAATTCAATTCGCGGTGTTATCCTGATCGATTTTTTATTTTTCAACTTGCGATGTTGTCCTAG
1 ATAAATTCAATTCGCGGTGTTATCCCGATCGATTCATTATTTTTCAACTTGCGATGTTATCCTAG
* * *
62973 TTGATTCTGTAAGACCTCCAGGCATAAATTCGATTCGTGGTGTTATCCTAATTGATTCTTTATTT
66 TCGATTCTGTAAGACCTCCAGGCATAAATTCGATTCGTGGTGTTATCCTAATCGATTCATTATTT
*
63038 TTCGATTTGTGGTGTTGTCCTAGTCGATTCTATAAGACCTCCGAGC
131 TTCGACTTGTGGTGTTGTCCTAGTCGATTCTATAAGACCTCCGAGC
** * * *
63084 ATAAATTTGATTCGCGGTGTTGTCCCGATCGATTCATTATTTTTGAA-TTGCGATGTTATTCT-G
1 ATAAATTCAATTCGCGGTGTTATCCCGATCGATTCATTATTTTTCAACTTGCGATGTTATCCTAG
* * * *
63147 ATCGATTTTGTAAGACCT-CTGCGCATAAATTCGATTCGCT-GTGTTATCTTGATCGATTCATTA
66 -TCGATTCTGTAAGACCTCCAG-GCATAAATTCGATTCG-TGGTGTTATCCTAATCGATTCATTA
*
63210 TTTTTTGACTTGTGGTGT
128 TTTTTCGACTTGTGGTGT
63228 CATCCCAATC
Statistics
Matches: 123, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
174 3 0.02
175 79 0.64
176 41 0.33
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (176 bp):
ATAAATTCAATTCGCGGTGTTATCCCGATCGATTCATTATTTTTCAACTTGCGATGTTATCCTAG
TCGATTCTGTAAGACCTCCAGGCATAAATTCGATTCGTGGTGTTATCCTAATCGATTCATTATTT
TTCGACTTGTGGTGTTGTCCTAGTCGATTCTATAAGACCTCCGAGC
Found at i:63420 original size:3 final size:3
Alignment explanation
Indices: 63399--63464 Score: 66
Period size: 3 Copynumber: 23.0 Consensus size: 3
63389 CATTTCAGTT
* ** **
63399 TAA TAT TAA TAA TTT TAA TAA TAA TAA TAA TAA TAA TAA TTT TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
63446 -AA T-A TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
63465 AAAAATGAGA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
2 6 0.12
3 45 0.88
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:64951 original size:16 final size:16
Alignment explanation
Indices: 64932--65050 Score: 116
Period size: 16 Copynumber: 7.4 Consensus size: 16
64922 CTAGGTTTCT
64932 AAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
64948 AAAATCCCCTAAAATCC
1 AAAA-CCCCTAAAATCC
* *
64965 AAAA-TCCTAAAATCT
1 AAAACCCCTAAAATCC
* *
64980 GAAACTCCTAAAAATCC
1 AAAACCCCT-AAAATCC
* *
64997 AAAATCCCTTAAATCC
1 AAAACCCCTAAAATCC
*
65013 -AAACTCCTTAAAATCC
1 AAAAC-CCCTAAAATCC
* *
65029 TAAACCCCTAAAATCT
1 AAAACCCCTAAAATCC
65045 AAAACC
1 AAAACC
65051 ACCCAAAATT
Statistics
Matches: 84, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
15 15 0.18
16 37 0.44
17 32 0.38
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.20
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:65242 original size:21 final size:21
Alignment explanation
Indices: 65216--65256 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
65206 CCAAACCCTA
65216 AAACCCTTAAAA-CTTGAATCC
1 AAACCCTTAAAATC-TGAATCC
65237 AAACCCTTAAAATCTGAATC
1 AAACCCTTAAAATCTGAATC
65257 TTCAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.44, C:0.27, G:0.05, T:0.24
Consensus pattern (21 bp):
AAACCCTTAAAATCTGAATCC
Found at i:65725 original size:24 final size:23
Alignment explanation
Indices: 65681--65725 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
65671 CTACTTTGTG
*
65681 ATAAAATATTTTATAATAAAAAA
1 ATAAAATATTTTATAAAAAAAAA
65704 ATAATAATACTTTT-TAAAAAAA
1 ATAA-AATA-TTTTATAAAAAAA
65726 TTGTGATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 11 0.58
25 4 0.21
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
ATAAAATATTTTATAAAAAAAAA
Found at i:66900 original size:65 final size:64
Alignment explanation
Indices: 66807--66936 Score: 206
Period size: 65 Copynumber: 2.0 Consensus size: 64
66797 GAAGAAGTGG
*
66807 AGAAGTGGCTTTAGATGTGCAAATGGTCAATAATAAAATACGGGCCACGAATCAAAGAGTGCAA
1 AGAAGTGGCTTTAGATGGGCAAATGGTCAATAATAAAATACGGGCCACGAATCAAAGAGTGCAA
* ** *
66871 AGAAGTGGCTTCTAGATGGGCAAATGGTCAATAATAAAATACGGGTCGTGAATGAAAGAGTGCAA
1 AGAAGTGGCTT-TAGATGGGCAAATGGTCAATAATAAAATACGGGCCACGAATCAAAGAGTGCAA
66936 A
1 A
66937 ATGTGTCTTG
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
64 11 0.18
65 49 0.82
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.21
Consensus pattern (64 bp):
AGAAGTGGCTTTAGATGGGCAAATGGTCAATAATAAAATACGGGCCACGAATCAAAGAGTGCAA
Found at i:70704 original size:14 final size:14
Alignment explanation
Indices: 70685--70713 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
70675 ACAACCTCTT
70685 TCCCCTTTCTTTTC
1 TCCCCTTTCTTTTC
70699 TCCCCTTTCTTTTC
1 TCCCCTTTCTTTTC
70713 T
1 T
70714 TTCCCAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (14 bp):
TCCCCTTTCTTTTC
Found at i:74338 original size:39 final size:37
Alignment explanation
Indices: 74274--74346 Score: 103
Period size: 36 Copynumber: 1.9 Consensus size: 37
74264 TTTAAATTAG
74274 ATTTTGTTGATAACAAGATTTAATTAT-TATTTACAA
1 ATTTTGTTGATAACAAGATTTAATTATGTATTTACAA
*
74310 ATTTTGTTGATAACAATATATTTAAATTATGTATTTA
1 ATTTTGTTGATAAC-A-AGATTT-AATTATGTATTTA
74347 AAAAATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 14 0.44
37 1 0.03
38 5 0.16
39 6 0.19
40 6 0.19
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.49
Consensus pattern (37 bp):
ATTTTGTTGATAACAAGATTTAATTATGTATTTACAA
Found at i:74386 original size:18 final size:18
Alignment explanation
Indices: 74365--74401 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
74355 ATAAAAAGAT
74365 AATTATATATATTTAAAA
1 AATTATATATATTTAAAA
*
74383 AATTTTATATATTTAAAA
1 AATTATATATATTTAAAA
74401 A
1 A
74402 GATAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTATATATATTTAAAA
Found at i:75753 original size:9 final size:10
Alignment explanation
Indices: 75730--75785 Score: 60
Period size: 11 Copynumber: 5.4 Consensus size: 10
75720 TAAAATTTTC
*
75730 TTTTTTATCA
1 TTTTTTATTA
75740 TTTTTTATTA
1 TTTTTTATTA
*
75750 TTTTTATTAATA
1 -TTTT-TTATTA
75762 TTTTTTATTAA
1 TTTTTTATT-A
75773 TTTTTTATT-
1 TTTTTTATTA
75782 TTTT
1 TTTT
75786 AGTAATAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 4 0.10
10 13 0.32
11 18 0.45
12 5 0.12
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:75766 original size:31 final size:33
Alignment explanation
Indices: 75731--75852 Score: 105
Period size: 30 Copynumber: 3.8 Consensus size: 33
75721 AAAATTTTCT
*
75731 TTTTTA-TCATTTTTTATTATTTTTATTAATAT
1 TTTTTAGTCATTTTTTATTATTTTTATTAATAA
* * *
75763 TTTTTATTAATTTTTTA-T-TTTTTAGTAATAA
1 TTTTTAGTCATTTTTTATTATTTTTATTAATAA
* *
75794 TTCTTA---ATTAATTT-TTATTTTTATTAATAA
1 TTTTTAGTCATT-TTTTATTATTTTTATTAATAA
*
75824 TTTTTAGTCAATTTTTTATTTTATTTTAT
1 TTTTTAGTC-ATTTTTTATTAT-TTTTAT
75853 ATAAAAAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
28 3 0.04
29 4 0.06
30 17 0.24
31 16 0.23
32 7 0.10
33 12 0.17
34 6 0.08
35 6 0.08
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (33 bp):
TTTTTAGTCATTTTTTATTATTTTTATTAATAA
Found at i:75848 original size:30 final size:30
Alignment explanation
Indices: 75742--75845 Score: 129
Period size: 31 Copynumber: 3.4 Consensus size: 30
75732 TTTTATCATT
*
75742 TTTTATTATTTTTATTAATATTTTTTATTAA
1 TTTT-TTATTTTTATTAATAATTTTTATTAA
* *
75773 TTTTTTATTTTTTAGTAATAATTCTTAATTAA
1 TTTTTTA-TTTTTATTAATAATT-TTTATTAA
*
75805 -TTTTTATTTTTATTAATAATTTTTAGTCAA
1 TTTTTTATTTTTATTAATAATTTTTA-TTAA
75835 TTTTTTATTTT
1 TTTTTTATTTT
75846 ATTTTATATA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
29 3 0.05
30 20 0.32
31 33 0.52
32 7 0.11
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (30 bp):
TTTTTTATTTTTATTAATAATTTTTATTAA
Found at i:76194 original size:18 final size:17
Alignment explanation
Indices: 76168--76213 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
76158 CAAACAAGAA
* *
76168 AATAAATAACAAAATAAT
1 AATATATAAAAAAAT-AT
76186 AATATATAAAAAAATAT
1 AATATATAAAAAAATAT
*
76203 AAAATATAAAA
1 AATATATAAAA
76214 TTACCTAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
AATATATAAAAAAATAT
Found at i:80944 original size:11 final size:11
Alignment explanation
Indices: 80928--80952 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
80918 TTGAAAATCG
80928 GGGGTCGGGTC
1 GGGGTCGGGTC
80939 GGGGTCGGGTC
1 GGGGTCGGGTC
80950 GGG
1 GGG
80953 TAGCATGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.68, T:0.16
Consensus pattern (11 bp):
GGGGTCGGGTC
Found at i:81111 original size:30 final size:31
Alignment explanation
Indices: 81057--81126 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
81047 ATTAATTTTT
* *
81057 TAAT-TTTTTAATTATATATATATTTATATAA
1 TAATATTTTTAA-TATATATATATTTAAAAAA
* *
81088 TGATATTTTTAA-ATATTTATATTTAAAAAA
1 TAATATTTTTAATATATATATATTTAAAAAA
81118 TAATATTTT
1 TAATATTTT
81127 ATTAATTTCG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
30 23 0.70
31 3 0.09
32 7 0.21
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (31 bp):
TAATATTTTTAATATATATATATTTAAAAAA
Found at i:82386 original size:31 final size:30
Alignment explanation
Indices: 82324--82386 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 30
82314 TGTTAAGTAA
* ** *
82324 TTAATTATTAAAAATTATTTTTAAATTATT
1 TTAATTATTAAAAATAATTTAAAAATAATT
*
82354 TTAATATATTAATAATAATTTAAAAATAATT
1 TTAAT-TATTAAAAATAATTTAAAAATAATT
82385 TT
1 TT
82387 TTAATTTAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
TTAATTATTAAAAATAATTTAAAAATAATT
Found at i:85229 original size:15 final size:13
Alignment explanation
Indices: 85192--85263 Score: 50
Period size: 13 Copynumber: 5.8 Consensus size: 13
85182 TAGAAATAGT
85192 AAAAGAT-AATAC
1 AAAAGATAAATAC
85204 AAAAG-TAAAATATCC
1 AAAAGAT-AAATA--C
85219 AAAAGATAAAT--
1 AAAAGATAAATAC
*
85230 AATA-ATAAA-AC
1 AAAAGATAAATAC
85241 AAAACGATAAATA-
1 AAAA-GATAAATAC
85254 AAAAGATAAA
1 AAAAGATAAA
85264 AGAAACTAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 20
0.69 0.03 0.29
Matches are distributed among these distances:
10 5 0.10
11 7 0.15
12 11 0.23
13 13 0.27
14 1 0.02
15 10 0.21
16 1 0.02
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.17
Consensus pattern (13 bp):
AAAAGATAAATAC
Found at i:85320 original size:6 final size:6
Alignment explanation
Indices: 85301--85352 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
85291 TAAAGGAAAG
* * * *
85301 AAAATT AAAA-A AAAAT- AAAACA AAAATA AGAATA AGAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
85347 AAAATA
1 AAAATA
85353 GGCCTAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
5 8 0.21
6 31 0.79
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:91465 original size:33 final size:33
Alignment explanation
Indices: 91418--91488 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
91408 GTTATTCTAA
* **
91418 GTAGATGATTTGTAGTTTGATCGTGGGAGTTTT
1 GTAGTTGATTTGTAGTTTGATAATGGGAGTTTT
91451 GTAGTTGATTTGTAGTTTGATAATGGGAGTTTT
1 GTAGTTGATTTGTAGTTTGATAATGGGAGTTTT
91484 GTAGT
1 GTAGT
91489 GGGAGTTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.20, C:0.01, G:0.32, T:0.46
Consensus pattern (33 bp):
GTAGTTGATTTGTAGTTTGATAATGGGAGTTTT
Found at i:94359 original size:2 final size:2
Alignment explanation
Indices: 94352--94377 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
94342 TGCTATAATG
94352 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
94378 ACGATCCGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Done.